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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D003976', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D003976' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D003976' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D003976' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D003976' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
<label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D003976', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D003976' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D003976' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D003976' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D003976' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' )
include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Notice (8): Trying to access array offset on value of type null [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D003976', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D003976' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D003976' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D003976' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D003976' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Warning (2): Invalid argument supplied for foreach() [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D003976', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D003976' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D003976', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '176', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' ) ), 'genes' => array( 'A01p41880' => 'bna', 'A03p36500' => 'bna', 'A05p38770' => 'bna', 'Aa31LG3G2960' => 'aar', 'Aa31LG6G7350' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4637' => 'aag', 'Actinidia18607' => 'ach', 'Actinidia18608' => 'ach', 'AL3G21710' => 'aly', 'AL491U10010' => 'aly', 'Aqoxy1G01141' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9SI57B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1F77T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WBL645' => 'arhy', 'AT3G10380' => 'ath', 'ATR0730G009' => 'atr', 'ATR0730G060' => 'atr', 'Atru.chr12.845' => 'acertr', 'AUR62013811' => 'cqu', 'AUR62023345' => 'cqu', 'BcaB04g21214' => 'bca', 'BcaC05g29471' => 'bca', 'BcaC09g48100' => 'bca', 'BcaNung07314' => 'bca', 'BolC1t05404H' => 'bol', 'BolC3t16685H' => 'bol', 'BolC5t34435H' => 'bol', 'BraA01t04258Z' => 'bra', 'BraA03t12817Z' => 'bra', 'BraA05t22668Z' => 'bra', 'BraA05t22669Z' => 'bra', 'C03p44100' => 'bna', 'C05p57780' => 'bna', 'CAN.G321.62' => 'can', 'CAN.G796.1' => 'can', 'CANSAT56G1655' => 'cansat', 'CARHR084860' => 'chi', 'Carub.0003s0956' => 'cru', 'Ca_00795_v3' => 'car', 'CBR_g30687' => 'cbr', 'Cc02_g10910' => 'ccan', 'Cc02_g10920' => 'ccan', 'Cc03_g09730' => 'ccan', 'Cc06_g17220' => 'ccan', 'CDE10G0060' => 'cde', 'CDE10G0301' => 'cde', 'CDE10G0443' => 'cde', 'CDE10G1014' => 'cde', 'Cfa001691' => 'cfa', 'Ciclev10030617m.g' => 'ccl', 'CiPaw.01G268500' => 'cil', 'CiPaw.02G172100' => 'cil', 'CiPaw.02G172200' => 'cil', 'ClCG08G007720' => 'cla', 'COL.COLO4_34214' => 'col', 'COL.COLO4_34215' => 'col', 'Cpa.g.sc53.132' => 'cpa', 'Cpa.g.sc53.134' => 'cpa', 'Cre01.g003050' => 'cre', 'CsaV3_6G036710' => 'csa', 'CSS0009675' => 'camsi', 'DCAR_019085' => 'dca', 'Dinv31232' => 'din', 'Duzib114G0598' => 'dzi', 'ECA238G0457' => 'eca', 'EL10Ac1g00696' => 'bvu', 'Eucgr.K02187' => 'egr', 'FAN01G1125' => 'fan', 'FAN03G2922' => 'fan', 'FAN06G0006' => 'fan', 'FAN06G1302' => 'fan', 'FAN10G1353' => 'fan', 'FAN10G3044' => 'fan', 'FvH4_7g18760' => 'fve', 'Glyma.10G207900' => 'gma', 'Glyma.20G182800' => 'gma', 'Gohir.A05G414300' => 'ghi', 'Gohir.A10G202400' => 'ghi', 'Gohir.D04G001800' => 'ghi', 'Gohir.D10G210566' => 'ghi', 'Gohir.D10G210600' => 'ghi', 'Gorai.011G236100' => 'gra', 'Gorai.012G002900' => 'gra', 'GSVIVG01016219001' => 'vvi', 'HanXRQChr05g0134171' => 'han', 'HanXRQChr05g0161261' => 'han', 'HanXRQChr14g0455711' => 'han', 'HanXRQChr14g0456581' => 'han', 'Haze_16845' => 'cav', 'Hma1.2p1_0384F.1_g140740' => 'hma', 'Hma1.2p1_0384F.1_g140760' => 'hma', 'Hma1.2p1_0384F.1_g140840' => 'hma', 'HPP92_022853' => 'vpl', 'HPP92_026132' => 'vpl', 'Hund17145' => 'sun', 'Lalb_Chr06g0170321' => 'lal', 'Lalb_Chr21g0313551' => 'lal', 'Lalb_Chr21g0313561' => 'lal', 'Lalb_Chr21g0313681' => 'lal', 'Lalb_Chr21g0313691' => 'lal', 'Lj2C20G12' => 'lonja', 'Lj5g0000763' => 'lja', 'Lj6g0023100' => 'lja', 'Lsat_1_v5_gn_2_113061' => 'lsa', 'Lsat_1_v5_gn_4_4660' => 'lsa', 'Lsat_1_v5_gn_6_63420' => 'lsa', 'Lsat_1_v5_gn_9_29220' => 'lsa', 'Manes.01G054600' => 'mes', 'Mapoly0170s0008' => 'mpo', 'MBI18_g27470_MAGBIO' => 'mbi', 'MBI18_g27471_MAGBIO' => 'mbi', 'MD01G1103100' => 'mdo', 'MD07G1169800' => 'mdo', 'Medtr5g017640' => 'mtr', 'Medtr8g104855' => 'mtr', 'MELO3C019825.2' => 'cme', 'Migut.F01955' => 'egut', 'MSTRG.27486' => 'ama', 'Nitab4.5_0001450g0090' => 'nta', 'Nitab4.5_0001659g0180' => 'nta', 'Nn3g18724' => 'nnu', 'Nn4g25176' => 'nnu', 'Oeu007408.1' => 'oeu', 'Oeu033874.1' => 'oeu', 'Os08g0318500' => 'osa', 'Peaxi162Scf00145g01214' => 'pax', 'Peaxi162Scf00145g01215' => 'pax', 'PGR044G0607' => 'pgr', 'Phvul.007G098800' => 'pvu', 'Potri.008G035300' => 'ptr', 'Potri.010G227100' => 'ptr', 'Pp3c12_15420' => 'ppa', 'Pp3c16_24260' => 'ppa', 'Pp3c3_21120' => 'ppa', 'Prupe.2G208700' => 'ppe', 'Prupe.5G231200' => 'ppe', 'Psat7g009400' => 'psa', 'Psat7g009440' => 'psa', 'PSO063G6915' => 'pso', 'PSO339G0981' => 'pso', 'PSO478G0690' => 'pso', 'QL08p054317' => 'qlo', 'QL08p054329' => 'qlo', 'RcHm_v2.0_Chr1g0362571' => 'rch', 'Rhsim03G0115800' => 'rsi', 'Sabra08G0023600' => 'sbr', 'Sabra10G0175200' => 'sbr', 'SalBow4G0398' => 'sbo', 'Sc06g0007810' => 'sci', 'Sed0018764' => 'sed', 'SEGI_25267' => 'sgi', 'SEGI_27589' => 'sgi', 'SGA_v2.0_scaffold100G29552' => 'sas', 'SHI08888' => 'shi', 'SMO172G0221' => 'smo', 'Solyc11g008340.3' => 'sly', 'Sopen11g004150' => 'spe', 'Sp3g08650' => 'spa', 'TAR633G0511' => 'tar', 'THA.LOC104826898' => 'tha', 'Thecc.10G083800' => 'tca', 'Thhalv10019960m.g' => 'esa', 'TPR.G28835' => 'tpr', 'TPR.G32679' => 'tpr', 'TPR.G33031' => 'tpr', 'TPR.G6473' => 'tpr', 'TWI15G0187' => 'twi', 'TWI63G1397' => 'twi', 'unitig_46.g18603' => 'ugi', 'vmacro00383' => 'vma', 'vmacro00384' => 'vma', 'vmacro00385' => 'vma', 'vmacro00386' => 'vma', 'VMungo0251G3371' => 'vmu', 'VMungo0720G2709' => 'vmu', 'Zm00001eb330040' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D003976' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D003976' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D003976' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D003976' )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