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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D004080', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D004080' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D004080' ) ), 'genes' => array( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D004080' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D004080' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D004080' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D004080' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
<label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D004080', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D004080' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D004080' ) ), 'genes' => array( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D004080' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D004080' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D004080' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D004080' )
include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Notice (8): Trying to access array offset on value of type null [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D004080', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D004080' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D004080' ) ), 'genes' => array( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D004080' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D004080' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D004080' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D004080' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Warning (2): Invalid argument supplied for foreach() [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D004080', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D004080' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D004080', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '172', 'num_species' => '94' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D004080' ) ), 'genes' => array( 'A02p17960' => 'bna', 'A06p00710' => 'bna', 'A07p38520' => 'bna', 'Aa31LG10G1450' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.1526' => 'aag', 'Actinidia24431' => 'ach', 'Actinidia24432' => 'ach', 'Ah.08g217320' => 'amhyb', 'AL1G62590' => 'aly', 'AL2G32020' => 'aly', 'Aqoxy7G04172' => 'aox', 'arahy.Tifrunner.gnm1.ann1.E9FGF4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I2K3PU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.L3RKN8' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z4XL8W' => 'arhy', 'AT1G53880' => 'ath', 'AT1G53900' => 'ath', 'AT1G72340' => 'ath', 'ATR0099G064' => 'atr', 'Atru.chr1.4109' => 'acertr', 'Atru.chr10.1447' => 'acertr', 'Atru.chr4.1739' => 'acertr', 'AUR62001413' => 'cqu', 'AUR62025622' => 'cqu', 'BcaB02g10878' => 'bca', 'BcaB03g14982' => 'bca', 'BcaB05g24748' => 'bca', 'BcaB07g33278' => 'bca', 'BcaB07g33281' => 'bca', 'BcaC03g15371' => 'bca', 'BcaC05g28883' => 'bca', 'BcaC08g43566' => 'bca', 'BcaC08g44141' => 'bca', 'BcaC08g46690' => 'bca', 'BolC2t09033H' => 'bol', 'BolC6t36036H' => 'bol', 'BolC6t36718H' => 'bol', 'BolC6t39715H' => 'bol', 'BraA02t06843Z' => 'bra', 'BraA07t31412Z' => 'bra', 'C02p29850' => 'bna', 'C06p09640' => 'bna', 'C06p46700' => 'bna', 'CAN.G1073.7' => 'can', 'CANSAT56G1857' => 'cansat', 'CARHR044200' => 'chi', 'CARHR065250' => 'chi', 'Carub.0001s4316' => 'cru', 'Carub.0002s1920' => 'cru', 'Ca_23429_v3' => 'car', 'Cc04_g00780' => 'ccan', 'CDE09G0018' => 'cde', 'CDE09G1267' => 'cde', 'Cfa003466' => 'cfa', 'Cfa021746' => 'cfa', 'Ciclev10025790m.g' => 'ccl', 'CiPaw.02G131500' => 'cil', 'ClCG09G001360' => 'cla', 'COL.COLO4_30858' => 'col', 'Cpa.g.sc25.185' => 'cpa', 'Cre16.g687518' => 'cre', 'CsaV3_7G033970' => 'csa', 'CSS0029048' => 'camsi', 'DCAR_007657' => 'dca', 'Dinv17514' => 'din', 'Dinv37823' => 'din', 'Duzib192G0957' => 'dzi', 'Duzib235G0388' => 'dzi', 'ECA247G2052' => 'eca', 'EL10Ac7g16485' => 'bvu', 'Eucgr.J02599' => 'egr', 'FAN02G3159' => 'fan', 'FAN05G3978' => 'fan', 'FAN09G4052' => 'fan', 'FAN14G5022' => 'fan', 'FvH4_3g21362' => 'fve', 'FvH4_6g35750' => 'fve', 'Glyma.03G263500' => 'gma', 'Glyma.07G045300' => 'gma', 'Glyma.19G262500' => 'gma', 'Gohir.A05G141401' => 'ghi', 'Gohir.A06G194600' => 'ghi', 'Gohir.D05G143600' => 'ghi', 'Gohir.D06G202300' => 'ghi', 'Gorai.009G147500' => 'gra', 'Gorai.010G236200' => 'gra', 'Gorai.012G178400' => 'gra', 'GSVIVG01016675001' => 'vvi', 'Haze_16125' => 'cav', 'Hma1.2p1_0229F.1_g097040' => 'hma', 'HPP92_011050' => 'vpl', 'HPP92_011073' => 'vpl', 'Lalb_Chr17g0343291' => 'lal', 'Lalb_Chr18g0044901' => 'lal', 'Lj1g0023220' => 'lja', 'Lj3g0001023' => 'lja', 'Lj9A537G36' => 'lonja', 'Lsat_1_v5_gn_1_39161' => 'lsa', 'Lsat_1_v5_gn_1_8840' => 'lsa', 'Lsat_1_v5_gn_4_92141' => 'lsa', 'Lsat_1_v5_gn_5_160641' => 'lsa', 'Manes.11G013200' => 'mes', 'Mapoly0002s0094' => 'mpo', 'MBI13_g01688_MAGBIO' => 'mbi', 'MBI13_g01689_MAGBIO' => 'mbi', 'MD09G1173400' => 'mdo', 'MD17G1153700' => 'mdo', 'Medtr8g023040' => 'mtr', 'MELO3C024310.2' => 'cme', 'Migut.D00915' => 'egut', 'MSTRG.22520' => 'ama', 'Nitab4.5_0000357g0150' => 'nta', 'Nitab4.5_0003981g0090' => 'nta', 'Nitab4.5_0004589g0010' => 'nta', 'Nitab4.5_0008798g0030' => 'nta', 'Nn6g35716' => 'nnu', 'Nn6g35722' => 'nnu', 'Oeu006748.1' => 'oeu', 'Oeu013440.1' => 'oeu', 'Oeu015474.1' => 'oeu', 'Oeu033128.1' => 'oeu', 'Os12g0497400' => 'osa', 'Peaxi162Scf00038g02253' => 'pax', 'PGR102G0694' => 'pgr', 'PGSC0003DMG400003233' => 'stu', 'PGSC0003DMG400028851' => 'stu', 'Phvul.009G262000' => 'pvu', 'Phvul.010G123700' => 'pvu', 'Potri.001G163300' => 'ptr', 'Potri.003G072100' => 'ptr', 'Pp3c16_17800' => 'ppa', 'Pp3c3_36280' => 'ppa', 'Pp3c5_19430' => 'ppa', 'PRCOL_00001985' => 'pco', 'Prupe.3G031500' => 'ppe', 'Psat4g165760' => 'psa', 'PSO135G0363' => 'pso', 'PSO724G0358' => 'pso', 'QL05p001373' => 'qlo', 'RcHm_v2.0_Chr2g0147751' => 'rch', 'Rhsim08G0244100' => 'rsi', 'Sabra01G0129400' => 'sbr', 'Sabra03G0042900' => 'sbr', 'SalBow6G1171' => 'sbo', 'SalBow7G2362' => 'sbo', 'Sc12g0010900' => 'sci', 'Sed0028223' => 'sed', 'SEGI_15203' => 'sgi', 'SEGI_17135' => 'sgi', 'SGA_v2.0_scaffold4G02093' => 'sas', 'SGA_v2.0_scaffold71G23916' => 'sas', 'SMO203G0081' => 'smo', 'Solyc12g049580.2' => 'sly', 'Sopen12g024050' => 'spe', 'Sopen12g024060' => 'spe', 'Sp1g40370' => 'spa', 'Sp5g27430' => 'spa', 'TAR383G0367' => 'tar', 'TAR626G1035' => 'tar', 'TAR629G1052' => 'tar', 'THA.LOC104815600' => 'tha', 'Thecc.06G129400' => 'tca', 'Thhalv10011350m.g' => 'esa', 'Thhalv10018714m.g' => 'esa', 'TPR.G18158' => 'tpr', 'TWI14G1096' => 'twi', 'TWI23G0788' => 'twi', 'vmacro15082' => 'vma', 'VMungo0331G0997' => 'vmu', 'VMungo1309G1832' => 'vmu', 'VMungo1383G0546' => 'vmu', 'Zm00001eb138200' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D004080' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D004080' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D004080' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D004080' )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