Notice (8): Undefined variable: source_groups_information [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($source_groups_information['available'] as $source_group_id) : ?> $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Tools/similarity_heatmap.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002703', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002703' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'subfamily_family_types' => array( (int) 0 => 'ORTHOFAM' ), 'parental_family_types' => array( (int) 0 => 'HOMFAM' ), 'gene_family_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'allowed_data_types' => array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) ) $sidebar_info = array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002703' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002703' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $subfamily_family_types = array( (int) 0 => 'ORTHOFAM' ) $parental_family_types = array( (int) 0 => 'HOMFAM' ) $gene_family_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $allowed_data_types = array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) $data_identifier_value = 'HOM05D002703' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
<label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($source_groups_information['available'] as $source_group_id) : ?>
<label>Source(s)</label>
<select class='form form-select' name='ontology_source_group' id='ontology_source_group'>
<?php foreach ($source_groups_information['available'] as $source_group_id) : ?>
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Tools/similarity_heatmap.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002703', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002703' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'subfamily_family_types' => array( (int) 0 => 'ORTHOFAM' ), 'parental_family_types' => array( (int) 0 => 'HOMFAM' ), 'gene_family_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'allowed_data_types' => array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) ) $sidebar_info = array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002703' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002703' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $subfamily_family_types = array( (int) 0 => 'ORTHOFAM' ) $parental_family_types = array( (int) 0 => 'HOMFAM' ) $gene_family_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $allowed_data_types = array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) $data_identifier_value = 'HOM05D002703' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' )
include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Notice (8): Trying to access array offset on value of type null [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($source_groups_information['available'] as $source_group_id) : ?> $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Tools/similarity_heatmap.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002703', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002703' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'subfamily_family_types' => array( (int) 0 => 'ORTHOFAM' ), 'parental_family_types' => array( (int) 0 => 'HOMFAM' ), 'gene_family_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'allowed_data_types' => array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) ) $sidebar_info = array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002703' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002703' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $subfamily_family_types = array( (int) 0 => 'ORTHOFAM' ) $parental_family_types = array( (int) 0 => 'HOMFAM' ) $gene_family_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $allowed_data_types = array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) $data_identifier_value = 'HOM05D002703' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Warning (2): Invalid argument supplied for foreach() [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($source_groups_information['available'] as $source_group_id) : ?> $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Tools/similarity_heatmap.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002703', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002703' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'subfamily_family_types' => array( (int) 0 => 'ORTHOFAM' ), 'parental_family_types' => array( (int) 0 => 'HOMFAM' ), 'gene_family_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'allowed_data_types' => array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) ) $sidebar_info = array( 'gf_id' => 'HOM05D002703', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '254', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' ) ), 'genes' => array( 'A01p08440' => 'bna', 'A01p08450' => 'bna', 'A01p08460' => 'bna', 'A03p59010' => 'bna', 'A08p19570' => 'bna', 'A08p19580' => 'bna', 'Aa31LG2G20860' => 'aar', 'Aa31LG2G20870' => 'aar', 'Aa31LG2G20880' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4938' => 'aag', 'Actinidia12692' => 'ach', 'Actinidia25257' => 'ach', 'Ah.09g228360' => 'amhyb', 'Ah.14g085230' => 'amhyb', 'AL7G22600' => 'aly', 'AL7G22610' => 'aly', 'AL7G22620' => 'aly', 'AL7G22630' => 'aly', 'Aqoxy7G01234' => 'aox', 'arahy.Tifrunner.gnm1.ann1.27FEJD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P7JP0M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YYF952' => 'arhy', 'AT4G29680' => 'ath', 'AT4G29690' => 'ath', 'AT4G29700' => 'ath', 'AT4G29710' => 'ath', 'ATR0026G060' => 'atr', 'Atru.chr7.1577' => 'acertr', 'AUR62027493' => 'cqu', 'AUR62033988' => 'cqu', 'BcaB03g12613' => 'bca', 'BcaB03g12614' => 'bca', 'BcaC01g01178' => 'bca', 'BcaC01g01179' => 'bca', 'BcaC01g01180' => 'bca', 'BcaC09g51746' => 'bca', 'BcaC09g51747' => 'bca', 'BcaC09g51748' => 'bca', 'BcaC09g52210' => 'bca', 'BcaC09g52219' => 'bca', 'BcaC09g52220' => 'bca', 'BcaNung00483' => 'bca', 'BolC1t00938H' => 'bol', 'BolC1t00939H' => 'bol', 'BolC1t00946H' => 'bol', 'BolC3t21229H' => 'bol', 'BolC3t21230H' => 'bol', 'BolC7t46175H' => 'bol', 'BraA01t00791Z' => 'bra', 'BraA01t00792Z' => 'bra', 'BraA01t00793Z' => 'bra', 'BraA03t14961Z' => 'bra', 'BraA08t33916Z' => 'bra', 'BraA08t33917Z' => 'bra', 'C01p09760' => 'bna', 'C01p09770' => 'bna', 'C01p09840' => 'bna', 'C03p89170' => 'bna', 'C03p89190' => 'bna', 'C03p89200' => 'bna', 'C03p89210' => 'bna', 'C07p57050' => 'bna', 'CAN.G491.4' => 'can', 'CANSAT56G1627' => 'cansat', 'CANSAT56G4319' => 'cansat', 'CARHR237530' => 'chi', 'CARHR237540' => 'chi', 'CARHR237550' => 'chi', 'CARHR237560' => 'chi', 'Carub.0007s1081' => 'cru', 'Carub.0007s1082' => 'cru', 'Carub.0007s1084' => 'cru', 'Carub.0008s0768' => 'cru', 'Ca_17406_v3' => 'car', 'Ca_25625_v3' => 'car', 'CBR_g27979' => 'cbr', 'CBR_g3480' => 'cbr', 'Cc06_g11320' => 'ccan', 'CDE07G0363' => 'cde', 'Cfa003095' => 'cfa', 'Cfa024105' => 'cfa', 'Ciclev10001130m.g' => 'ccl', 'Ciclev10008105m.g' => 'ccl', 'CiPaw.03G217100' => 'cil', 'ClCG11G001800' => 'cla', 'COL.COLO4_18210' => 'col', 'Cpa.g.sc93.23' => 'cpa', 'CsaV3_2G001510' => 'csa', 'CSS0001795' => 'camsi', 'CSS0032365' => 'camsi', 'CSS0041033' => 'camsi', 'CSS0042793' => 'camsi', 'DCAR_004380' => 'dca', 'DCAR_011979' => 'dca', 'DCAR_011980' => 'dca', 'DCAR_011981' => 'dca', 'DCAR_011982' => 'dca', 'DCAR_013366' => 'dca', 'Dinv36759' => 'din', 'Dinv42314' => 'din', 'Duzib150G1348' => 'dzi', 'Duzib168G1537' => 'dzi', 'Duzib187G0697' => 'dzi', 'ECA240G1423' => 'eca', 'ECA240G2943' => 'eca', 'EL10Ac8g19232' => 'bvu', 'Eucgr.C03891' => 'egr', 'FAN19G0345' => 'fan', 'FAN23G1787' => 'fan', 'FAN26G0453' => 'fan', 'FAN26G2612' => 'fan', 'FAN28G0735' => 'fan', 'FvH4_1g07280' => 'fve', 'Glyma.01G002600' => 'gma', 'Glyma.05G222200' => 'gma', 'Glyma.07G129700' => 'gma', 'Glyma.08G028900' => 'gma', 'Gohir.A05G029700' => 'ghi', 'Gohir.A06G072100' => 'ghi', 'Gohir.D05G031100' => 'ghi', 'Gohir.D06G070600' => 'ghi', 'Gorai.009G031300' => 'gra', 'Gorai.010G082300' => 'gra', 'GSVIVG01015213001' => 'vvi', 'HanXRQChr03g0060421' => 'han', 'Haze_25903' => 'cav', 'Hma1.2p1_0798F.1_g219770' => 'hma', 'Hma1.2p1_0800F.1_g220080' => 'hma', 'HPP92_003970' => 'vpl', 'HPP92_006467' => 'vpl', 'Lalb_Chr05g0223661' => 'lal', 'Lalb_Chr14g0375361' => 'lal', 'Lj2g0010514' => 'lja', 'Lj2g0017054' => 'lja', 'Lj2g0019934' => 'lja', 'Lj4A307G51' => 'lonja', 'Lj4g0006156' => 'lja', 'Lj7P674T34' => 'lonja', 'Lsat_1_v5_gn_5_85400' => 'lsa', 'Lsat_1_v5_gn_7_37360' => 'lsa', 'Lsat_1_v5_gn_7_37400' => 'lsa', 'Lsat_1_v5_gn_7_37420' => 'lsa', 'Lsat_1_v5_gn_8_71560' => 'lsa', 'Manes.03G033000' => 'mes', 'Manes.16G102800' => 'mes', 'Mapoly0040s0009' => 'mpo', 'Mapoly0071s0108' => 'mpo', 'MBI01_g09955_MAGBIO' => 'mbi', 'MCO13G054' => 'mco', 'MD02G1077600' => 'mdo', 'MD15G1206200' => 'mdo', 'Medtr1g007440' => 'mtr', 'Medtr6g092720' => 'mtr', 'Medtr8g101560' => 'mtr', 'MELO3C004621.2' => 'cme', 'Migut.H01157' => 'egut', 'Migut.H01160' => 'egut', 'Migut.H01161' => 'egut', 'Migut.J00601' => 'egut', 'Migut.J00602' => 'egut', 'Migut.J00611' => 'egut', 'Migut.L01487' => 'egut', 'MSTRG.6054' => 'ama', 'Nitab4.5_0005634g0010' => 'nta', 'Nitab4.5_0005634g0060' => 'nta', 'Nitab4.5_0014305g0010' => 'nta', 'Nitab4.5_0014305g0040' => 'nta', 'Nn6g35449' => 'nnu', 'Nn8g38890' => 'nnu', 'Oeu018236.1' => 'oeu', 'Oeu018427.1' => 'oeu', 'Oeu034040.1' => 'oeu', 'Os01g0196600' => 'osa', 'Peaxi162Scf00496g00061' => 'pax', 'PGR102G0314' => 'pgr', 'PGR102G3342' => 'pgr', 'PGSC0003DMG400030123' => 'stu', 'PGSC0003DMG400030124' => 'stu', 'Phvul.002G303900' => 'pvu', 'Phvul.004G176900' => 'pvu', 'Potri.006G150900' => 'ptr', 'Potri.018G066600' => 'ptr', 'Pp3c11_25540' => 'ppa', 'Pp3c7_1990' => 'ppa', 'Pp3c8_13050' => 'ppa', 'Pp3s30_290' => 'ppa', 'Prupe.7G211200' => 'ppe', 'Psat1g050840' => 'psa', 'Psat7g020280' => 'psa', 'PSO063G2084' => 'pso', 'PSO210G3465' => 'pso', 'PSO210G4137' => 'pso', 'PSO832G2647' => 'pso', 'QL02p062838' => 'qlo', 'RcHm_v2.0_Chr2g0093191' => 'rch', 'RcHm_v2.0_Chr2g0093211' => 'rch', 'Rhsim05G0022100' => 'rsi', 'Sabra06G0119500' => 'sbr', 'Sabra18G0059000' => 'sbr', 'SabraUnG0005400' => 'sbr', 'SalBow1G4267' => 'sbo', 'SalBow6G6967' => 'sbo', 'Sc18g0002080' => 'sci', 'Sed0027760' => 'sed', 'SEGI_11141' => 'sgi', 'SEGI_36715' => 'sgi', 'SEGI_38404' => 'sgi', 'SEGI_39987' => 'sgi', 'SGA_v2.0_scaffold21G09361' => 'sas', 'SGA_v2.0_scaffold62G21602' => 'sas', 'SMO145G0063' => 'smo', 'SMO145G0103' => 'smo', 'SMO145G0131' => 'smo', 'SMO145G0219' => 'smo', 'SMO145G0255' => 'smo', 'SMO157G0001' => 'smo', 'SMO203G0095' => 'smo', 'SMO203G0116' => 'smo', 'Solyc07g037950.1' => 'sly', 'Solyc07g037960.1' => 'sly', 'Sopen07g017310' => 'spe', 'Sopen07g017320' => 'spe', 'Sp3g22800' => 'spa', 'Sp7g27470' => 'spa', 'Sp7g27480' => 'spa', 'TAR624G0639' => 'tar', 'THA.LOC104814614' => 'tha', 'Thecc.09G090400' => 'tca', 'Thhalv10024984m.g' => 'esa', 'Thhalv10025136m.g' => 'esa', 'Thhalv10027375m.g' => 'esa', 'TPR.G21351' => 'tpr', 'TPR.G23226' => 'tpr', 'TPR.G35486' => 'tpr', 'TPR.G39635' => 'tpr', 'TWI32G0466' => 'twi', 'TWI34G0532' => 'twi', 'unitig_27.g24724' => 'ugi', 'unitig_27.g24725' => 'ugi', 'unitig_27.g25366' => 'ugi', 'unitig_27.g25367' => 'ugi', 'unitig_28.g29446' => 'ugi', 'unitig_8.g4693' => 'ugi', 'vmacro17225' => 'vma', 'vmacro17226' => 'vma', 'VMungo0251G3094' => 'vmu', 'VMungo0464G0628' => 'vmu', 'Zm00001eb120900' => 'zma', 'Zm00001eb160570' => 'zma', 'Zm00001eb160580' => 'zma', 'Zm00001eb177950' => 'zma', 'Zm00001eb177960' => 'zma', 'Zm00001eb398910' => 'zma', 'Zm00001eb398920' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002703' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002703' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $subfamily_family_types = array( (int) 0 => 'ORTHOFAM' ) $parental_family_types = array( (int) 0 => 'HOMFAM' ) $gene_family_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $allowed_data_types = array( 'GO' => 'Gene Ontology', 'INTERPRO' => 'InterPro', 'GENE_FAMILY' => 'Gene Family' ) $data_identifier_value = 'HOM05D002703' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002703' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151