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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002331', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002331' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D002331' ) ), 'genes' => array( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002331' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002331' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D002331' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002331' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
<label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002331', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002331' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D002331' ) ), 'genes' => array( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002331' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002331' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D002331' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002331' )
include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Notice (8): Trying to access array offset on value of type null [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002331', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002331' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D002331' ) ), 'genes' => array( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002331' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002331' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D002331' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002331' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Warning (2): Invalid argument supplied for foreach() [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_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( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D002331', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D002331' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D002331', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '291', 'num_species' => '100' ) $sidebar = 'gene_family_sidebar' $navigation_bar_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' => 'HOM05D002331' ) ), 'genes' => array( 'A03p03840' => 'bna', 'A09p58690' => 'bna', 'Aa31LG1G25690' => 'aar', 'Aa31LG3G18140' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.597' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_368.1436' => 'aag', 'Actinidia01437' => 'ach', 'Actinidia01438' => 'ach', 'Actinidia04368' => 'ach', 'Actinidia09883' => 'ach', 'Actinidia11074' => 'ach', 'Actinidia30482' => 'ach', 'Actinidia39304' => 'ach', 'Ah.08g215550' => 'amhyb', 'Ah.09g235870' => 'amhyb', 'Ah.12g060870' => 'amhyb', 'Ah.12g062140' => 'amhyb', 'AL3G54090' => 'aly', 'AL3G54110' => 'aly', 'AL6G18880' => 'aly', 'Aqoxy1G02648' => 'aox', 'Aqoxy2G02280' => 'aox', 'Aqoxy6G02720' => 'aox', 'Aqoxy7G02133' => 'aox', 'arahy.Tifrunner.gnm1.ann1.MX7F3A' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SS7YSV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XUM6CZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z3UMR9' => 'arhy', 'AT2G20860' => 'ath', 'AT5G08415' => 'ath', 'ATR0165G020' => 'atr', 'ATR0693G089' => 'atr', 'Atru.BG.28.p' => 'acertr', 'Atru.chr11.34' => 'acertr', 'Atru.chr6.2851' => 'acertr', 'Atru.chr6.3044' => 'acertr', 'AUR62000731' => 'cqu', 'AUR62005234' => 'cqu', 'AUR62014757' => 'cqu', 'AUR62016934' => 'cqu', 'AUR62036492' => 'cqu', 'AUR62037079' => 'cqu', 'BcaB01g05596' => 'bca', 'BcaB01g05598' => 'bca', 'BcaB08g34944' => 'bca', 'BcaC03g13228' => 'bca', 'BcaC07g41192' => 'bca', 'BolC2t06318H' => 'bol', 'BolC3t12966H' => 'bol', 'BolC8t51761H' => 'bol', 'BraA02t04957Z' => 'bra', 'BraA03t09731Z' => 'bra', 'BraA09t41255Z' => 'bra', 'C02p03600' => 'bna', 'C03p04330' => 'bna', 'C08p41980' => 'bna', 'CAN.G484.25' => 'can', 'CAN.G996.12' => 'can', 'CANSAT64G1618' => 'cansat', 'CANSAT78G1845' => 'cansat', 'CARHR111600' => 'chi', 'CARHR204620' => 'chi', 'Carub.0003s1300' => 'cru', 'Carub.0003s3552' => 'cru', 'Carub.0006s0733' => 'cru', 'Ca_01528_v3' => 'car', 'Ca_26189_v3' => 'car', 'CBR_g10962' => 'cbr', 'CBR_g54240' => 'cbr', 'Cc05_g06640' => 'ccan', 'Cc11_g00380' => 'ccan', 'CDE03G0329' => 'cde', 'CDE05G0148' => 'cde', 'CDE05G1172' => 'cde', 'CDE06G0564' => 'cde', 'Cfa008860' => 'cfa', 'Cfa014563' => 'cfa', 'Cfa024354' => 'cfa', 'Ciclev10015632m.g' => 'ccl', 'Ciclev10015778m.g' => 'ccl', 'Ciclev10023687m.g' => 'ccl', 'Ciclev10026917m.g' => 'ccl', 'CiPaw.03G171600' => 'cil', 'CiPaw.05G123400' => 'cil', 'CiPaw.06G093400' => 'cil', 'ClCG02G001230' => 'cla', 'ClCG11G012780' => 'cla', 'COL.COLO4_13709' => 'col', 'COL.COLO4_33152' => 'col', 'Cpa.g.sc221.10' => 'cpa', 'Cpa.g.sc221.14' => 'cpa', 'Cpa.g.sc221.9' => 'cpa', 'Cre02.g114400' => 'cre', 'Cre08.g359700' => 'cre', 'CsaV3_5G029160' => 'csa', 'CsaV3_7G004210' => 'csa', 'CSS0017502' => 'camsi', 'CSS0017886' => 'camsi', 'DCAR_006118' => 'dca', 'DCAR_012991' => 'dca', 'DCAR_023496' => 'dca', 'DCAR_026872' => 'dca', 'Dinv01393' => 'din', 'Dinv01394' => 'din', 'Dinv17659' => 'din', 'Duzib052G0932' => 'dzi', 'Duzib132G0977' => 'dzi', 'ECA234G2427' => 'eca', 'ECA236G3284' => 'eca', 'EL10Ac3g05353' => 'bvu', 'EL10Ac7g17583' => 'bvu', 'EL10Ac8g19475' => 'bvu', 'Eucgr.J00329' => 'egr', 'Eucgr.K00943' => 'egr', 'FAN02G3640' => 'fan', 'FAN05G0805' => 'fan', 'FAN05G2490' => 'fan', 'FAN07G1612' => 'fan', 'FAN09G2949' => 'fan', 'FAN14G2104' => 'fan', 'FAN17G0720' => 'fan', 'FvH4_4g37350' => 'fve', 'FvH4_6g44960' => 'fve', 'Glyma.10G279476' => 'gma', 'Glyma.10G279551' => 'gma', 'Glyma.13G299900' => 'gma', 'Glyma.20G110200' => 'gma', 'Glyma.U031222' => 'gma', 'Gohir.A03G168000' => 'ghi', 'Gohir.A13G056600' => 'ghi', 'Gohir.D02G191100' => 'ghi', 'Gohir.D13G065300' => 'ghi', 'Gorai.005G213900' => 'gra', 'Gorai.013G074500' => 'gra', 'GSVIVG01006944001' => 'vvi', 'GSVIVG01034350001' => 'vvi', 'HanXRQChr05g0142151' => 'han', 'HanXRQChr10g0289531' => 'han', 'HanXRQChr12g0358451' => 'han', 'HanXRQChr17g0559041' => 'han', 'Haze_11882' => 'cav', 'Haze_13108' => 'cav', 'Haze_26671' => 'cav', 'Haze_27334' => 'cav', 'Hma1.2p1_1355F.1_g277840' => 'hma', 'HPP92_015689' => 'vpl', 'HPP92_016343' => 'vpl', 'HPP92_016440' => 'vpl', 'Hund10708' => 'sun', 'Hund13304' => 'sun', 'Hund14795' => 'sun', 'Hund23646' => 'sun', 'Lalb_Chr02g0146311' => 'lal', 'Lalb_Chr14g0366701' => 'lal', 'Lj2P967T14' => 'lonja', 'Lj3g0024444' => 'lja', 'Lj5g0003140' => 'lja', 'Lj6C706G10' => 'lonja', 'Lj8A115T59' => 'lonja', 'Lsat_1_v5_gn_4_70261' => 'lsa', 'Lsat_1_v5_gn_8_68401' => 'lsa', 'Manes.04G160700' => 'mes', 'Manes.13G149900' => 'mes', 'Mapoly0013s0196' => 'mpo', 'Mapoly0061s0116' => 'mpo', 'MBI02_g22347_MAGBIO' => 'mbi', 'MBI02_g37077_MAGBIO' => 'mbi', 'MCO03G161' => 'mco', 'MCO14G288' => 'mco', 'MD09G1091400' => 'mdo', 'MD12G1087800' => 'mdo', 'MD13G1000600' => 'mdo', 'MD16G1005000' => 'mdo', 'MD17G1081300' => 'mdo', 'Medtr1g050432' => 'mtr', 'Medtr1g069485' => 'mtr', 'Medtr2g090140' => 'mtr', 'MELO3C011768.2' => 'cme', 'MELO3C018756.2' => 'cme', 'MELO3C025098.2' => 'cme', 'MELO3C035404.2' => 'cme', 'Migut.E00590' => 'egut', 'Migut.H01037' => 'egut', 'MSTRG.12304' => 'ama', 'MSTRG.14192' => 'ama', 'MSTRG.2086' => 'ama', 'Nitab4.5_0000635g0130' => 'nta', 'Nitab4.5_0001290g0040' => 'nta', 'Nitab4.5_0002310g0020' => 'nta', 'Nitab4.5_0002370g0020' => 'nta', 'Nitab4.5_0003018g0100' => 'nta', 'Nitab4.5_0010167g0010' => 'nta', 'Nn1g03958' => 'nnu', 'Nn1g06688' => 'nnu', 'Nn2g12787' => 'nnu', 'Oeu006321.1' => 'oeu', 'Oeu027938.1' => 'oeu', 'Oeu041290.1' => 'oeu', 'Oeu047660.1' => 'oeu', 'Os04g0455800' => 'osa', 'Os05g0511500' => 'osa', 'Peaxi162Scf00007g02858' => 'pax', 'Peaxi162Scf00272g00922' => 'pax', 'PGR044G2486' => 'pgr', 'PGSC0003DMG400004642' => 'stu', 'PGSC0003DMG400018323' => 'stu', 'Phvul.005G072800' => 'pvu', 'Phvul.005G106700' => 'pvu', 'Phvul.007G021800' => 'pvu', 'Potri.005G086200' => 'ptr', 'Potri.007G078400' => 'ptr', 'Potri.013G136000' => 'ptr', 'Potri.019G102700' => 'ptr', 'Pp3c12_13440' => 'ppa', 'Pp3c22_7200' => 'ppa', 'Pp3c4_9900' => 'ppa', 'PRCOL_00004654' => 'pco', 'PRCOL_00005096' => 'pco', 'Prupe.1G352000' => 'ppe', 'Prupe.3G233600' => 'ppe', 'Psat5g270520' => 'psa', 'Psat6g094680' => 'psa', 'Psat6g139920' => 'psa', 'PSO063G5798' => 'pso', 'PSO541G5212' => 'pso', 'PSO675G6690' => 'pso', 'PSO782G4260' => 'pso', 'QL03p073666' => 'qlo', 'QL08p037635' => 'qlo', 'QL08p055297' => 'qlo', 'QL10p018006' => 'qlo', 'QL10p018049' => 'qlo', 'QL10p018789' => 'qlo', 'QL11p004889' => 'qlo', 'QL93p0191_0029' => 'qlo', 'RcHm_v2.0_Chr1g0348111' => 'rch', 'RcHm_v2.0_Chr2g0162201' => 'rch', 'RcHm_v2.0_Chr4g0401871' => 'rch', 'RcHm_v2.0_Chr4g0447211' => 'rch', 'Rhsim06G0149300' => 'rsi', 'Rhsim09G0155100' => 'rsi', 'Sabra07G0066100' => 'sbr', 'Sabra13G0115300' => 'sbr', 'Sabra19G0113600' => 'sbr', 'SalBow1G4908' => 'sbo', 'Sc17g0003970' => 'sci', 'Sc17g0006430' => 'sci', 'Sed0005410' => 'sed', 'Sed0017971' => 'sed', 'Sed0021807' => 'sed', 'SEGI_07534' => 'sgi', 'SEGI_17190' => 'sgi', 'SEGI_19742' => 'sgi', 'SEGI_27983' => 'sgi', 'SGA_v2.0_scaffold109G31094' => 'sas', 'SGA_v2.0_scaffold329G48880' => 'sas', 'SGA_v2.0_scaffold65G22160' => 'sas', 'SGA_v2.0_scaffold96G29025' => 'sas', 'SHI21158' => 'shi', 'SMO271G0129' => 'smo', 'SMO365G0047' => 'smo', 'Solyc07g054540.4' => 'sly', 'Solyc08g068440.4' => 'sly', 'Solyc12g099700.3' => 'sly', 'Sopen07g028450' => 'spe', 'Sopen12g034340' => 'spe', 'Sp3g34110' => 'spa', 'Sp6g34520' => 'spa', 'TAR624G0268' => 'tar', 'TAR626G0544' => 'tar', 'TAR626G1041' => 'tar', 'THA.LOC104804071' => 'tha', 'THA.LOC104818389' => 'tha', 'Thecc.02G151900' => 'tca', 'Thecc.02G174300' => 'tca', 'Thhalv10002016m.g' => 'esa', 'Thhalv10013747m.g' => 'esa', 'TPR.G10634' => 'tpr', 'TPR.G35551' => 'tpr', 'TWI56G0732' => 'twi', 'TWI77G0577' => 'twi', 'unitig_749.g13951' => 'ugi', 'unitig_8.g4026' => 'ugi', 'vmacro12270' => 'vma', 'vmacro16163' => 'vma', 'VMungo0720G2290' => 'vmu', 'VMungo1080G0992' => 'vmu', 'VMungo1080G1545' => 'vmu', 'Zm00001eb081090' => 'zma', 'Zm00001eb152040' => 'zma', 'Zm00001eb370140' => 'zma' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D002331' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D002331' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D002331' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D002331' )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