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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 'SalBow3G1754' => 'sbo', 'SalBow3G1922' => 'sbo', 'SalBow3G2271' => 'sbo', 'SalBow3G2290' => 'sbo', 'SalBow3G2428' => 'sbo', 'SalBow3G2482' => 'sbo', 'SalBow3G2538' => 'sbo', 'SalBow3G2551' => 'sbo', 'SalBow3G2579' => 'sbo', 'SalBow3G2623' => 'sbo', 'SalBow3G2653' => 'sbo', 'SalBow3G2866' => 'sbo', 'SalBow3G2995' => 'sbo', 'SalBow3G3511' => 'sbo', 'SalBow3G3527' => 'sbo', 'SalBow3G3693' => 'sbo', 'SalBow3G3963' => 'sbo', 'SalBow3G4052' => 'sbo', 'SalBow3G4224' => 'sbo', 'SalBow3G4341' => 'sbo', 'SalBow3G4357' => 'sbo', 'SalBow4G0152' => 'sbo', 'SalBow4G0486' => 'sbo', 'SalBow4G0525' => 'sbo', 'SalBow4G0714' => 'sbo', 'SalBow4G0904' => 'sbo', 'SalBow4G1143' => 'sbo', 'SalBow4G1224' => 'sbo', 'SalBow4G1662' => 'sbo', 'SalBow4G1798' => 'sbo', 'SalBow4G1822' => 'sbo', 'SalBow4G1909' => 'sbo', 'SalBow4G1933' => 'sbo', 'SalBow4G1976' => 'sbo', 'SalBow4G2005' => 'sbo', 'SalBow4G2018' => 'sbo', 'SalBow4G2128' => 'sbo', 'SalBow4G2271' => 'sbo', 'SalBow4G2546' => 'sbo', 'SalBow4G2570' => 'sbo', 'SalBow4G2650' => 'sbo', 'SalBow4G2753' => 'sbo', 'SalBow4G2764' => 'sbo', 'SalBow4G2980' => 'sbo', 'SalBow4G2983' => 'sbo', 'SalBow4G3215' => 'sbo', 'SalBow5G0210' => 'sbo', 'SalBow5G0271' => 'sbo', 'SalBow5G0311' => 'sbo', 'SalBow5G0321' => 'sbo', 'SalBow5G0367' => 'sbo', 'SalBow5G0520' => 'sbo', 'SalBow5G0524' => 'sbo', 'SalBow5G0789' => 'sbo', 'SalBow5G0821' => 'sbo', 'SalBow5G0838' => 'sbo', 'SalBow5G0852' => 'sbo', 'SalBow5G0856' => 'sbo', 'SalBow5G0905' => 'sbo', 'SalBow5G1495' => 'sbo', 'SalBow5G1545' => 'sbo', 'SalBow5G1595' => 'sbo', 'SalBow5G1658' => 'sbo', 'SalBow5G1670' => 'sbo', 'SalBow5G1845' => 'sbo', 'SalBow5G2192' => 'sbo', 'SalBow5G2217' => 'sbo', 'SalBow5G2240' => 'sbo', 'SalBow5G2252' => 'sbo', 'SalBow5G2362' => 'sbo', 'SalBow5G2427' => 'sbo', 'SalBow5G2846' => 'sbo', 'SalBow5G3196' => 'sbo', 'SalBow5G3608' => 'sbo', 'SalBow5G3612' => 'sbo', 'SalBow5G3613' => 'sbo', 'SalBow5G3668' => 'sbo', 'SalBow5G3710' => 'sbo', 'SalBow5G3872' => 'sbo', 'SalBow5G3878' => 'sbo', 'SalBow5G3883' => 'sbo', 'SalBow5G3983' => 'sbo', 'SalBow5G4042' => 'sbo', 'SalBow5G4150' => 'sbo', 'SalBow5G4177' => 'sbo', 'SalBow5G4409' => 'sbo', 'SalBow5G4457' => 'sbo', 'SalBow5G4473' => 'sbo', 'SalBow5G4522' => 'sbo', 'SalBow5G4553' => 'sbo', 'SalBow5G4661' => 'sbo', 'SalBow5G4807' => 'sbo', 'SalBow5G4836' => 'sbo', 'SalBow5G4848' => 'sbo', 'SalBow5G4918' => 'sbo', 'SalBow5G5085' => 'sbo', 'SalBow5G5393' => 'sbo', 'SalBow5G5533' => 'sbo', 'SalBow5G5644' => 'sbo', 'SalBow5G5658' => 'sbo', 'SalBow6G0147' => 'sbo', 'SalBow6G0304' => 'sbo', 'SalBow6G0525' => 'sbo', 'SalBow6G0636' => 'sbo', 'SalBow6G0751' => 'sbo', 'SalBow6G1142' => 'sbo', 'SalBow6G1152' => 'sbo', 'SalBow6G1172' => 'sbo', 'SalBow6G1198' => 'sbo', 'SalBow6G1366' => 'sbo', 'SalBow6G1413' => 'sbo', 'SalBow6G1430' => 'sbo', 'SalBow6G1566' => 'sbo', 'SalBow6G1593' => 'sbo', 'SalBow6G1625' => 'sbo', 'SalBow6G1781' => 'sbo', 'SalBow6G1803' => 'sbo', 'SalBow6G1809' => 'sbo', 'SalBow6G1939' => 'sbo', 'SalBow6G2069' => 'sbo', 'SalBow6G2724' => 'sbo', 'SalBow6G3162' => 'sbo', 'SalBow6G3315' => 'sbo', 'SalBow6G3451' => 'sbo', 'SalBow6G3695' => 'sbo', 'SalBow6G3814' => 'sbo', 'SalBow6G3847' => 'sbo', 'SalBow6G3873' => 'sbo', 'SalBow6G4019' => 'sbo', 'SalBow6G4029' => 'sbo', 'SalBow6G4147' => 'sbo', 'SalBow6G4237' => 'sbo', 'SalBow6G4352' => 'sbo', 'SalBow6G4430' => 'sbo', 'SalBow6G4575' => 'sbo', 'SalBow6G5143' => 'sbo', 'SalBow6G5185' => 'sbo', 'SalBow6G5197' => 'sbo', 'SalBow6G5604' => 'sbo', 'SalBow6G5606' => 'sbo', 'SalBow6G5637' => 'sbo', 'SalBow6G5677' => 'sbo', 'SalBow6G5830' => 'sbo', 'SalBow6G7069' => 'sbo', 'SalBow7G0181' => 'sbo', 'SalBow7G0240' => 'sbo', 'SalBow7G0358' => 'sbo', 'SalBow7G0674' => 'sbo', 'SalBow7G0922' => 'sbo', 'SalBow7G0927' => 'sbo', 'SalBow7G0971' => 'sbo', 'SalBow7G1045' => 'sbo', 'SalBow7G1265' => 'sbo', 'SalBow7G1375' => 'sbo', 'SalBow7G1377' => 'sbo', 'SalBow7G1451' => 'sbo', 'SalBow7G1716' => 'sbo', 'SalBow7G1794' => 'sbo', 'SalBow7G1825' => 'sbo', 'SalBow7G1855' => 'sbo', 'SalBow7G1933' => 'sbo', 'SalBow7G2171' => 'sbo', 'SalBow7G2702' => 'sbo', 'SalBow7G2711' => 'sbo', 'SalBow7G2815' => 'sbo', 'SalBow7G2851' => 'sbo', 'SalBow7G2886' => 'sbo', 'SalBow7G2985' => 'sbo', 'SalBow7G3013' => 'sbo', 'SalBow7G3180' => 'sbo', 'SalBow7G3255' => 'sbo', 'SalBow7G3298' => 'sbo', 'SalBow7G3366' => 'sbo', 'SalBow7G3547' => 'sbo', 'SalBow7G3658' => 'sbo', 'SalBow7G3707' => 'sbo', 'SalBow7G3781' => 'sbo', 'SalBow7G3842' => 'sbo', 'SalBow7G3853' => 'sbo', 'SalBow7G3856' => 'sbo', 'SalBow7G3875' => 'sbo', 'SalBow7G4004' => 'sbo', 'SalBow7G4321' => 'sbo', 'SalBow7G4329' => 'sbo', 'SalBow7G4333' => 'sbo', 'SalBow7G4468' => 'sbo', 'SalBow7G4658' => 'sbo', 'SalBow7G4733' => 'sbo', 'SalBow7G4753' => 'sbo', 'SalBow8G0202' => 'sbo', 'SalBow8G0277' => 'sbo', 'SalBow8G0570' => 'sbo', 'SalBow8G0645' => 'sbo', 'SalBow8G0805' => 'sbo', 'SalBow8G0871' => 'sbo', 'SalBow8G0980' => 'sbo', 'SalBow8G1302' => 'sbo', 'SalBow8G1443' => 'sbo', 'SalBow8G1756' => 'sbo', 'SalBow8G1791' => 'sbo', 'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D001898', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001898' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 'SalBow3G1754' => 'sbo', 'SalBow3G1922' => 'sbo', 'SalBow3G2271' => 'sbo', 'SalBow3G2290' => 'sbo', 'SalBow3G2428' => 'sbo', 'SalBow3G2482' => 'sbo', 'SalBow3G2538' => 'sbo', 'SalBow3G2551' => 'sbo', 'SalBow3G2579' => 'sbo', 'SalBow3G2623' => 'sbo', 'SalBow3G2653' => 'sbo', 'SalBow3G2866' => 'sbo', 'SalBow3G2995' => 'sbo', 'SalBow3G3511' => 'sbo', 'SalBow3G3527' => 'sbo', 'SalBow3G3693' => 'sbo', 'SalBow3G3963' => 'sbo', 'SalBow3G4052' => 'sbo', 'SalBow3G4224' => 'sbo', 'SalBow3G4341' => 'sbo', 'SalBow3G4357' => 'sbo', 'SalBow4G0152' => 'sbo', 'SalBow4G0486' => 'sbo', 'SalBow4G0525' => 'sbo', 'SalBow4G0714' => 'sbo', 'SalBow4G0904' => 'sbo', 'SalBow4G1143' => 'sbo', 'SalBow4G1224' => 'sbo', 'SalBow4G1662' => 'sbo', 'SalBow4G1798' => 'sbo', 'SalBow4G1822' => 'sbo', 'SalBow4G1909' => 'sbo', 'SalBow4G1933' => 'sbo', 'SalBow4G1976' => 'sbo', 'SalBow4G2005' => 'sbo', 'SalBow4G2018' => 'sbo', 'SalBow4G2128' => 'sbo', 'SalBow4G2271' => 'sbo', 'SalBow4G2546' => 'sbo', 'SalBow4G2570' => 'sbo', 'SalBow4G2650' => 'sbo', 'SalBow4G2753' => 'sbo', 'SalBow4G2764' => 'sbo', 'SalBow4G2980' => 'sbo', 'SalBow4G2983' => 'sbo', 'SalBow4G3215' => 'sbo', 'SalBow5G0210' => 'sbo', 'SalBow5G0271' => 'sbo', 'SalBow5G0311' => 'sbo', 'SalBow5G0321' => 'sbo', 'SalBow5G0367' => 'sbo', 'SalBow5G0520' => 'sbo', 'SalBow5G0524' => 'sbo', 'SalBow5G0789' => 'sbo', 'SalBow5G0821' => 'sbo', 'SalBow5G0838' => 'sbo', 'SalBow5G0852' => 'sbo', 'SalBow5G0856' => 'sbo', 'SalBow5G0905' => 'sbo', 'SalBow5G1495' => 'sbo', 'SalBow5G1545' => 'sbo', 'SalBow5G1595' => 'sbo', 'SalBow5G1658' => 'sbo', 'SalBow5G1670' => 'sbo', 'SalBow5G1845' => 'sbo', 'SalBow5G2192' => 'sbo', 'SalBow5G2217' => 'sbo', 'SalBow5G2240' => 'sbo', 'SalBow5G2252' => 'sbo', 'SalBow5G2362' => 'sbo', 'SalBow5G2427' => 'sbo', 'SalBow5G2846' => 'sbo', 'SalBow5G3196' => 'sbo', 'SalBow5G3608' => 'sbo', 'SalBow5G3612' => 'sbo', 'SalBow5G3613' => 'sbo', 'SalBow5G3668' => 'sbo', 'SalBow5G3710' => 'sbo', 'SalBow5G3872' => 'sbo', 'SalBow5G3878' => 'sbo', 'SalBow5G3883' => 'sbo', 'SalBow5G3983' => 'sbo', 'SalBow5G4042' => 'sbo', 'SalBow5G4150' => 'sbo', 'SalBow5G4177' => 'sbo', 'SalBow5G4409' => 'sbo', 'SalBow5G4457' => 'sbo', 'SalBow5G4473' => 'sbo', 'SalBow5G4522' => 'sbo', 'SalBow5G4553' => 'sbo', 'SalBow5G4661' => 'sbo', 'SalBow5G4807' => 'sbo', 'SalBow5G4836' => 'sbo', 'SalBow5G4848' => 'sbo', 'SalBow5G4918' => 'sbo', 'SalBow5G5085' => 'sbo', 'SalBow5G5393' => 'sbo', 'SalBow5G5533' => 'sbo', 'SalBow5G5644' => 'sbo', 'SalBow5G5658' => 'sbo', 'SalBow6G0147' => 'sbo', 'SalBow6G0304' => 'sbo', 'SalBow6G0525' => 'sbo', 'SalBow6G0636' => 'sbo', 'SalBow6G0751' => 'sbo', 'SalBow6G1142' => 'sbo', 'SalBow6G1152' => 'sbo', 'SalBow6G1172' => 'sbo', 'SalBow6G1198' => 'sbo', 'SalBow6G1366' => 'sbo', 'SalBow6G1413' => 'sbo', 'SalBow6G1430' => 'sbo', 'SalBow6G1566' => 'sbo', 'SalBow6G1593' => 'sbo', 'SalBow6G1625' => 'sbo', 'SalBow6G1781' => 'sbo', 'SalBow6G1803' => 'sbo', 'SalBow6G1809' => 'sbo', 'SalBow6G1939' => 'sbo', 'SalBow6G2069' => 'sbo', 'SalBow6G2724' => 'sbo', 'SalBow6G3162' => 'sbo', 'SalBow6G3315' => 'sbo', 'SalBow6G3451' => 'sbo', 'SalBow6G3695' => 'sbo', 'SalBow6G3814' => 'sbo', 'SalBow6G3847' => 'sbo', 'SalBow6G3873' => 'sbo', 'SalBow6G4019' => 'sbo', 'SalBow6G4029' => 'sbo', 'SalBow6G4147' => 'sbo', 'SalBow6G4237' => 'sbo', 'SalBow6G4352' => 'sbo', 'SalBow6G4430' => 'sbo', 'SalBow6G4575' => 'sbo', 'SalBow6G5143' => 'sbo', 'SalBow6G5185' => 'sbo', 'SalBow6G5197' => 'sbo', 'SalBow6G5604' => 'sbo', 'SalBow6G5606' => 'sbo', 'SalBow6G5637' => 'sbo', 'SalBow6G5677' => 'sbo', 'SalBow6G5830' => 'sbo', 'SalBow6G7069' => 'sbo', 'SalBow7G0181' => 'sbo', 'SalBow7G0240' => 'sbo', 'SalBow7G0358' => 'sbo', 'SalBow7G0674' => 'sbo', 'SalBow7G0922' => 'sbo', 'SalBow7G0927' => 'sbo', 'SalBow7G0971' => 'sbo', 'SalBow7G1045' => 'sbo', 'SalBow7G1265' => 'sbo', 'SalBow7G1375' => 'sbo', 'SalBow7G1377' => 'sbo', 'SalBow7G1451' => 'sbo', 'SalBow7G1716' => 'sbo', 'SalBow7G1794' => 'sbo', 'SalBow7G1825' => 'sbo', 'SalBow7G1855' => 'sbo', 'SalBow7G1933' => 'sbo', 'SalBow7G2171' => 'sbo', 'SalBow7G2702' => 'sbo', 'SalBow7G2711' => 'sbo', 'SalBow7G2815' => 'sbo', 'SalBow7G2851' => 'sbo', 'SalBow7G2886' => 'sbo', 'SalBow7G2985' => 'sbo', 'SalBow7G3013' => 'sbo', 'SalBow7G3180' => 'sbo', 'SalBow7G3255' => 'sbo', 'SalBow7G3298' => 'sbo', 'SalBow7G3366' => 'sbo', 'SalBow7G3547' => 'sbo', 'SalBow7G3658' => 'sbo', 'SalBow7G3707' => 'sbo', 'SalBow7G3781' => 'sbo', 'SalBow7G3842' => 'sbo', 'SalBow7G3853' => 'sbo', 'SalBow7G3856' => 'sbo', 'SalBow7G3875' => 'sbo', 'SalBow7G4004' => 'sbo', 'SalBow7G4321' => 'sbo', 'SalBow7G4329' => 'sbo', 'SalBow7G4333' => 'sbo', 'SalBow7G4468' => 'sbo', 'SalBow7G4658' => 'sbo', 'SalBow7G4733' => 'sbo', 'SalBow7G4753' => 'sbo', 'SalBow8G0202' => 'sbo', 'SalBow8G0277' => 'sbo', 'SalBow8G0570' => 'sbo', 'SalBow8G0645' => 'sbo', 'SalBow8G0805' => 'sbo', 'SalBow8G0871' => 'sbo', 'SalBow8G0980' => 'sbo', 'SalBow8G1302' => 'sbo', 'SalBow8G1443' => 'sbo', 'SalBow8G1756' => 'sbo', 'SalBow8G1791' => 'sbo', 'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D001898' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001898' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D001898' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
<label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 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'SalBow7G3547' => 'sbo', 'SalBow7G3658' => 'sbo', 'SalBow7G3707' => 'sbo', 'SalBow7G3781' => 'sbo', 'SalBow7G3842' => 'sbo', 'SalBow7G3853' => 'sbo', 'SalBow7G3856' => 'sbo', 'SalBow7G3875' => 'sbo', 'SalBow7G4004' => 'sbo', 'SalBow7G4321' => 'sbo', 'SalBow7G4329' => 'sbo', 'SalBow7G4333' => 'sbo', 'SalBow7G4468' => 'sbo', 'SalBow7G4658' => 'sbo', 'SalBow7G4733' => 'sbo', 'SalBow7G4753' => 'sbo', 'SalBow8G0202' => 'sbo', 'SalBow8G0277' => 'sbo', 'SalBow8G0570' => 'sbo', 'SalBow8G0645' => 'sbo', 'SalBow8G0805' => 'sbo', 'SalBow8G0871' => 'sbo', 'SalBow8G0980' => 'sbo', 'SalBow8G1302' => 'sbo', 'SalBow8G1443' => 'sbo', 'SalBow8G1756' => 'sbo', 'SalBow8G1791' => 'sbo', 'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D001898', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001898' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 'SalBow3G1754' => 'sbo', 'SalBow3G1922' => 'sbo', 'SalBow3G2271' => 'sbo', 'SalBow3G2290' => 'sbo', 'SalBow3G2428' => 'sbo', 'SalBow3G2482' => 'sbo', 'SalBow3G2538' => 'sbo', 'SalBow3G2551' => 'sbo', 'SalBow3G2579' => 'sbo', 'SalBow3G2623' => 'sbo', 'SalBow3G2653' => 'sbo', 'SalBow3G2866' => 'sbo', 'SalBow3G2995' => 'sbo', 'SalBow3G3511' => 'sbo', 'SalBow3G3527' => 'sbo', 'SalBow3G3693' => 'sbo', 'SalBow3G3963' => 'sbo', 'SalBow3G4052' => 'sbo', 'SalBow3G4224' => 'sbo', 'SalBow3G4341' => 'sbo', 'SalBow3G4357' => 'sbo', 'SalBow4G0152' => 'sbo', 'SalBow4G0486' => 'sbo', 'SalBow4G0525' => 'sbo', 'SalBow4G0714' => 'sbo', 'SalBow4G0904' => 'sbo', 'SalBow4G1143' => 'sbo', 'SalBow4G1224' => 'sbo', 'SalBow4G1662' => 'sbo', 'SalBow4G1798' => 'sbo', 'SalBow4G1822' => 'sbo', 'SalBow4G1909' => 'sbo', 'SalBow4G1933' => 'sbo', 'SalBow4G1976' => 'sbo', 'SalBow4G2005' => 'sbo', 'SalBow4G2018' => 'sbo', 'SalBow4G2128' => 'sbo', 'SalBow4G2271' => 'sbo', 'SalBow4G2546' => 'sbo', 'SalBow4G2570' => 'sbo', 'SalBow4G2650' => 'sbo', 'SalBow4G2753' => 'sbo', 'SalBow4G2764' => 'sbo', 'SalBow4G2980' => 'sbo', 'SalBow4G2983' => 'sbo', 'SalBow4G3215' => 'sbo', 'SalBow5G0210' => 'sbo', 'SalBow5G0271' => 'sbo', 'SalBow5G0311' => 'sbo', 'SalBow5G0321' => 'sbo', 'SalBow5G0367' => 'sbo', 'SalBow5G0520' => 'sbo', 'SalBow5G0524' => 'sbo', 'SalBow5G0789' => 'sbo', 'SalBow5G0821' => 'sbo', 'SalBow5G0838' => 'sbo', 'SalBow5G0852' => 'sbo', 'SalBow5G0856' => 'sbo', 'SalBow5G0905' => 'sbo', 'SalBow5G1495' => 'sbo', 'SalBow5G1545' => 'sbo', 'SalBow5G1595' => 'sbo', 'SalBow5G1658' => 'sbo', 'SalBow5G1670' => 'sbo', 'SalBow5G1845' => 'sbo', 'SalBow5G2192' => 'sbo', 'SalBow5G2217' => 'sbo', 'SalBow5G2240' => 'sbo', 'SalBow5G2252' => 'sbo', 'SalBow5G2362' => 'sbo', 'SalBow5G2427' => 'sbo', 'SalBow5G2846' => 'sbo', 'SalBow5G3196' => 'sbo', 'SalBow5G3608' => 'sbo', 'SalBow5G3612' => 'sbo', 'SalBow5G3613' => 'sbo', 'SalBow5G3668' => 'sbo', 'SalBow5G3710' => 'sbo', 'SalBow5G3872' => 'sbo', 'SalBow5G3878' => 'sbo', 'SalBow5G3883' => 'sbo', 'SalBow5G3983' => 'sbo', 'SalBow5G4042' => 'sbo', 'SalBow5G4150' => 'sbo', 'SalBow5G4177' => 'sbo', 'SalBow5G4409' => 'sbo', 'SalBow5G4457' => 'sbo', 'SalBow5G4473' => 'sbo', 'SalBow5G4522' => 'sbo', 'SalBow5G4553' => 'sbo', 'SalBow5G4661' => 'sbo', 'SalBow5G4807' => 'sbo', 'SalBow5G4836' => 'sbo', 'SalBow5G4848' => 'sbo', 'SalBow5G4918' => 'sbo', 'SalBow5G5085' => 'sbo', 'SalBow5G5393' => 'sbo', 'SalBow5G5533' => 'sbo', 'SalBow5G5644' => 'sbo', 'SalBow5G5658' => 'sbo', 'SalBow6G0147' => 'sbo', 'SalBow6G0304' => 'sbo', 'SalBow6G0525' => 'sbo', 'SalBow6G0636' => 'sbo', 'SalBow6G0751' => 'sbo', 'SalBow6G1142' => 'sbo', 'SalBow6G1152' => 'sbo', 'SalBow6G1172' => 'sbo', 'SalBow6G1198' => 'sbo', 'SalBow6G1366' => 'sbo', 'SalBow6G1413' => 'sbo', 'SalBow6G1430' => 'sbo', 'SalBow6G1566' => 'sbo', 'SalBow6G1593' => 'sbo', 'SalBow6G1625' => 'sbo', 'SalBow6G1781' => 'sbo', 'SalBow6G1803' => 'sbo', 'SalBow6G1809' => 'sbo', 'SalBow6G1939' => 'sbo', 'SalBow6G2069' => 'sbo', 'SalBow6G2724' => 'sbo', 'SalBow6G3162' => 'sbo', 'SalBow6G3315' => 'sbo', 'SalBow6G3451' => 'sbo', 'SalBow6G3695' => 'sbo', 'SalBow6G3814' => 'sbo', 'SalBow6G3847' => 'sbo', 'SalBow6G3873' => 'sbo', 'SalBow6G4019' => 'sbo', 'SalBow6G4029' => 'sbo', 'SalBow6G4147' => 'sbo', 'SalBow6G4237' => 'sbo', 'SalBow6G4352' => 'sbo', 'SalBow6G4430' => 'sbo', 'SalBow6G4575' => 'sbo', 'SalBow6G5143' => 'sbo', 'SalBow6G5185' => 'sbo', 'SalBow6G5197' => 'sbo', 'SalBow6G5604' => 'sbo', 'SalBow6G5606' => 'sbo', 'SalBow6G5637' => 'sbo', 'SalBow6G5677' => 'sbo', 'SalBow6G5830' => 'sbo', 'SalBow6G7069' => 'sbo', 'SalBow7G0181' => 'sbo', 'SalBow7G0240' => 'sbo', 'SalBow7G0358' => 'sbo', 'SalBow7G0674' => 'sbo', 'SalBow7G0922' => 'sbo', 'SalBow7G0927' => 'sbo', 'SalBow7G0971' => 'sbo', 'SalBow7G1045' => 'sbo', 'SalBow7G1265' => 'sbo', 'SalBow7G1375' => 'sbo', 'SalBow7G1377' => 'sbo', 'SalBow7G1451' => 'sbo', 'SalBow7G1716' => 'sbo', 'SalBow7G1794' => 'sbo', 'SalBow7G1825' => 'sbo', 'SalBow7G1855' => 'sbo', 'SalBow7G1933' => 'sbo', 'SalBow7G2171' => 'sbo', 'SalBow7G2702' => 'sbo', 'SalBow7G2711' => 'sbo', 'SalBow7G2815' => 'sbo', 'SalBow7G2851' => 'sbo', 'SalBow7G2886' => 'sbo', 'SalBow7G2985' => 'sbo', 'SalBow7G3013' => 'sbo', 'SalBow7G3180' => 'sbo', 'SalBow7G3255' => 'sbo', 'SalBow7G3298' => 'sbo', 'SalBow7G3366' => 'sbo', 'SalBow7G3547' => 'sbo', 'SalBow7G3658' => 'sbo', 'SalBow7G3707' => 'sbo', 'SalBow7G3781' => 'sbo', 'SalBow7G3842' => 'sbo', 'SalBow7G3853' => 'sbo', 'SalBow7G3856' => 'sbo', 'SalBow7G3875' => 'sbo', 'SalBow7G4004' => 'sbo', 'SalBow7G4321' => 'sbo', 'SalBow7G4329' => 'sbo', 'SalBow7G4333' => 'sbo', 'SalBow7G4468' => 'sbo', 'SalBow7G4658' => 'sbo', 'SalBow7G4733' => 'sbo', 'SalBow7G4753' => 'sbo', 'SalBow8G0202' => 'sbo', 'SalBow8G0277' => 'sbo', 'SalBow8G0570' => 'sbo', 'SalBow8G0645' => 'sbo', 'SalBow8G0805' => 'sbo', 'SalBow8G0871' => 'sbo', 'SalBow8G0980' => 'sbo', 'SalBow8G1302' => 'sbo', 'SalBow8G1443' => 'sbo', 'SalBow8G1756' => 'sbo', 'SalBow8G1791' => 'sbo', 'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D001898' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001898' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D001898' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' )
include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Notice (8): Trying to access array offset on value of type null [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 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'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ), 'data_type' => 'gene_family', 'gf_id' => 'HOM05D001898', 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001898' ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 'SalBow3G1754' => 'sbo', 'SalBow3G1922' => 'sbo', 'SalBow3G2271' => 'sbo', 'SalBow3G2290' => 'sbo', 'SalBow3G2428' => 'sbo', 'SalBow3G2482' => 'sbo', 'SalBow3G2538' => 'sbo', 'SalBow3G2551' => 'sbo', 'SalBow3G2579' => 'sbo', 'SalBow3G2623' => 'sbo', 'SalBow3G2653' => 'sbo', 'SalBow3G2866' => 'sbo', 'SalBow3G2995' => 'sbo', 'SalBow3G3511' => 'sbo', 'SalBow3G3527' => 'sbo', 'SalBow3G3693' => 'sbo', 'SalBow3G3963' => 'sbo', 'SalBow3G4052' => 'sbo', 'SalBow3G4224' => 'sbo', 'SalBow3G4341' => 'sbo', 'SalBow3G4357' => 'sbo', 'SalBow4G0152' => 'sbo', 'SalBow4G0486' => 'sbo', 'SalBow4G0525' => 'sbo', 'SalBow4G0714' => 'sbo', 'SalBow4G0904' => 'sbo', 'SalBow4G1143' => 'sbo', 'SalBow4G1224' => 'sbo', 'SalBow4G1662' => 'sbo', 'SalBow4G1798' => 'sbo', 'SalBow4G1822' => 'sbo', 'SalBow4G1909' => 'sbo', 'SalBow4G1933' => 'sbo', 'SalBow4G1976' => 'sbo', 'SalBow4G2005' => 'sbo', 'SalBow4G2018' => 'sbo', 'SalBow4G2128' => 'sbo', 'SalBow4G2271' => 'sbo', 'SalBow4G2546' => 'sbo', 'SalBow4G2570' => 'sbo', 'SalBow4G2650' => 'sbo', 'SalBow4G2753' => 'sbo', 'SalBow4G2764' => 'sbo', 'SalBow4G2980' => 'sbo', 'SalBow4G2983' => 'sbo', 'SalBow4G3215' => 'sbo', 'SalBow5G0210' => 'sbo', 'SalBow5G0271' => 'sbo', 'SalBow5G0311' => 'sbo', 'SalBow5G0321' => 'sbo', 'SalBow5G0367' => 'sbo', 'SalBow5G0520' => 'sbo', 'SalBow5G0524' => 'sbo', 'SalBow5G0789' => 'sbo', 'SalBow5G0821' => 'sbo', 'SalBow5G0838' => 'sbo', 'SalBow5G0852' => 'sbo', 'SalBow5G0856' => 'sbo', 'SalBow5G0905' => 'sbo', 'SalBow5G1495' => 'sbo', 'SalBow5G1545' => 'sbo', 'SalBow5G1595' => 'sbo', 'SalBow5G1658' => 'sbo', 'SalBow5G1670' => 'sbo', 'SalBow5G1845' => 'sbo', 'SalBow5G2192' => 'sbo', 'SalBow5G2217' => 'sbo', 'SalBow5G2240' => 'sbo', 'SalBow5G2252' => 'sbo', 'SalBow5G2362' => 'sbo', 'SalBow5G2427' => 'sbo', 'SalBow5G2846' => 'sbo', 'SalBow5G3196' => 'sbo', 'SalBow5G3608' => 'sbo', 'SalBow5G3612' => 'sbo', 'SalBow5G3613' => 'sbo', 'SalBow5G3668' => 'sbo', 'SalBow5G3710' => 'sbo', 'SalBow5G3872' => 'sbo', 'SalBow5G3878' => 'sbo', 'SalBow5G3883' => 'sbo', 'SalBow5G3983' => 'sbo', 'SalBow5G4042' => 'sbo', 'SalBow5G4150' => 'sbo', 'SalBow5G4177' => 'sbo', 'SalBow5G4409' => 'sbo', 'SalBow5G4457' => 'sbo', 'SalBow5G4473' => 'sbo', 'SalBow5G4522' => 'sbo', 'SalBow5G4553' => 'sbo', 'SalBow5G4661' => 'sbo', 'SalBow5G4807' => 'sbo', 'SalBow5G4836' => 'sbo', 'SalBow5G4848' => 'sbo', 'SalBow5G4918' => 'sbo', 'SalBow5G5085' => 'sbo', 'SalBow5G5393' => 'sbo', 'SalBow5G5533' => 'sbo', 'SalBow5G5644' => 'sbo', 'SalBow5G5658' => 'sbo', 'SalBow6G0147' => 'sbo', 'SalBow6G0304' => 'sbo', 'SalBow6G0525' => 'sbo', 'SalBow6G0636' => 'sbo', 'SalBow6G0751' => 'sbo', 'SalBow6G1142' => 'sbo', 'SalBow6G1152' => 'sbo', 'SalBow6G1172' => 'sbo', 'SalBow6G1198' => 'sbo', 'SalBow6G1366' => 'sbo', 'SalBow6G1413' => 'sbo', 'SalBow6G1430' => 'sbo', 'SalBow6G1566' => 'sbo', 'SalBow6G1593' => 'sbo', 'SalBow6G1625' => 'sbo', 'SalBow6G1781' => 'sbo', 'SalBow6G1803' => 'sbo', 'SalBow6G1809' => 'sbo', 'SalBow6G1939' => 'sbo', 'SalBow6G2069' => 'sbo', 'SalBow6G2724' => 'sbo', 'SalBow6G3162' => 'sbo', 'SalBow6G3315' => 'sbo', 'SalBow6G3451' => 'sbo', 'SalBow6G3695' => 'sbo', 'SalBow6G3814' => 'sbo', 'SalBow6G3847' => 'sbo', 'SalBow6G3873' => 'sbo', 'SalBow6G4019' => 'sbo', 'SalBow6G4029' => 'sbo', 'SalBow6G4147' => 'sbo', 'SalBow6G4237' => 'sbo', 'SalBow6G4352' => 'sbo', 'SalBow6G4430' => 'sbo', 'SalBow6G4575' => 'sbo', 'SalBow6G5143' => 'sbo', 'SalBow6G5185' => 'sbo', 'SalBow6G5197' => 'sbo', 'SalBow6G5604' => 'sbo', 'SalBow6G5606' => 'sbo', 'SalBow6G5637' => 'sbo', 'SalBow6G5677' => 'sbo', 'SalBow6G5830' => 'sbo', 'SalBow6G7069' => 'sbo', 'SalBow7G0181' => 'sbo', 'SalBow7G0240' => 'sbo', 'SalBow7G0358' => 'sbo', 'SalBow7G0674' => 'sbo', 'SalBow7G0922' => 'sbo', 'SalBow7G0927' => 'sbo', 'SalBow7G0971' => 'sbo', 'SalBow7G1045' => 'sbo', 'SalBow7G1265' => 'sbo', 'SalBow7G1375' => 'sbo', 'SalBow7G1377' => 'sbo', 'SalBow7G1451' => 'sbo', 'SalBow7G1716' => 'sbo', 'SalBow7G1794' => 'sbo', 'SalBow7G1825' => 'sbo', 'SalBow7G1855' => 'sbo', 'SalBow7G1933' => 'sbo', 'SalBow7G2171' => 'sbo', 'SalBow7G2702' => 'sbo', 'SalBow7G2711' => 'sbo', 'SalBow7G2815' => 'sbo', 'SalBow7G2851' => 'sbo', 'SalBow7G2886' => 'sbo', 'SalBow7G2985' => 'sbo', 'SalBow7G3013' => 'sbo', 'SalBow7G3180' => 'sbo', 'SalBow7G3255' => 'sbo', 'SalBow7G3298' => 'sbo', 'SalBow7G3366' => 'sbo', 'SalBow7G3547' => 'sbo', 'SalBow7G3658' => 'sbo', 'SalBow7G3707' => 'sbo', 'SalBow7G3781' => 'sbo', 'SalBow7G3842' => 'sbo', 'SalBow7G3853' => 'sbo', 'SalBow7G3856' => 'sbo', 'SalBow7G3875' => 'sbo', 'SalBow7G4004' => 'sbo', 'SalBow7G4321' => 'sbo', 'SalBow7G4329' => 'sbo', 'SalBow7G4333' => 'sbo', 'SalBow7G4468' => 'sbo', 'SalBow7G4658' => 'sbo', 'SalBow7G4733' => 'sbo', 'SalBow7G4753' => 'sbo', 'SalBow8G0202' => 'sbo', 'SalBow8G0277' => 'sbo', 'SalBow8G0570' => 'sbo', 'SalBow8G0645' => 'sbo', 'SalBow8G0805' => 'sbo', 'SalBow8G0871' => 'sbo', 'SalBow8G0980' => 'sbo', 'SalBow8G1302' => 'sbo', 'SalBow8G1443' => 'sbo', 'SalBow8G1756' => 'sbo', 'SalBow8G1791' => 'sbo', 'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D001898' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001898' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D001898' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' )include - APP/View/Tools/similarity_heatmap.ctp, line 77 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::render() - CORE/Cake/View/View.php, line 473 Controller::render() - CORE/Cake/Controller/Controller.php, line 963 Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 200 Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 167 [main] - APP/webroot/index.php, line 151
Warning (2): Invalid argument supplied for foreach() [APP/View/Tools/similarity_heatmap.ctp, line 77]Code Context <label>Source(s)</label> <select class='form form-select' name='ontology_source_group' id='ontology_source_group'> <?php foreach ($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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ), 'gene_selection' => array( 'parameters' => array( (int) 0 => array( [maximum depth reached] ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 'SalBow3G1754' => 'sbo', 'SalBow3G1922' => 'sbo', 'SalBow3G2271' => 'sbo', 'SalBow3G2290' => 'sbo', 'SalBow3G2428' => 'sbo', 'SalBow3G2482' => 'sbo', 'SalBow3G2538' => 'sbo', 'SalBow3G2551' => 'sbo', 'SalBow3G2579' => 'sbo', 'SalBow3G2623' => 'sbo', 'SalBow3G2653' => 'sbo', 'SalBow3G2866' => 'sbo', 'SalBow3G2995' => 'sbo', 'SalBow3G3511' => 'sbo', 'SalBow3G3527' => 'sbo', 'SalBow3G3693' => 'sbo', 'SalBow3G3963' => 'sbo', 'SalBow3G4052' => 'sbo', 'SalBow3G4224' => 'sbo', 'SalBow3G4341' => 'sbo', 'SalBow3G4357' => 'sbo', 'SalBow4G0152' => 'sbo', 'SalBow4G0486' => 'sbo', 'SalBow4G0525' => 'sbo', 'SalBow4G0714' => 'sbo', 'SalBow4G0904' => 'sbo', 'SalBow4G1143' => 'sbo', 'SalBow4G1224' => 'sbo', 'SalBow4G1662' => 'sbo', 'SalBow4G1798' => 'sbo', 'SalBow4G1822' => 'sbo', 'SalBow4G1909' => 'sbo', 'SalBow4G1933' => 'sbo', 'SalBow4G1976' => 'sbo', 'SalBow4G2005' => 'sbo', 'SalBow4G2018' => 'sbo', 'SalBow4G2128' => 'sbo', 'SalBow4G2271' => 'sbo', 'SalBow4G2546' => 'sbo', 'SalBow4G2570' => 'sbo', 'SalBow4G2650' => 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chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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' => 'HOM05D001898', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '347', 'num_species' => '1' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false, 'has_blast_db' => true ) $gene_selection = array( 'parameters' => array( (int) 0 => array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' ) ), 'genes' => array( 'SalBow1G0061' => 'sbo', 'SalBow1G0072' => 'sbo', 'SalBow1G0148' => 'sbo', 'SalBow1G0253' => 'sbo', 'SalBow1G0264' => 'sbo', 'SalBow1G0302' => 'sbo', 'SalBow1G0432' => 'sbo', 'SalBow1G0591' => 'sbo', 'SalBow1G0599' => 'sbo', 'SalBow1G0668' => 'sbo', 'SalBow1G0682' => 'sbo', 'SalBow1G0759' => 'sbo', 'SalBow1G0870' => 'sbo', 'SalBow1G0912' => 'sbo', 'SalBow1G0969' => 'sbo', 'SalBow1G0998' => 'sbo', 'SalBow1G1091' => 'sbo', 'SalBow1G1127' => 'sbo', 'SalBow1G1259' => 'sbo', 'SalBow1G1350' => 'sbo', 'SalBow1G1373' => 'sbo', 'SalBow1G1683' => 'sbo', 'SalBow1G1722' => 'sbo', 'SalBow1G1944' => 'sbo', 'SalBow1G2160' => 'sbo', 'SalBow1G2334' => 'sbo', 'SalBow1G2351' => 'sbo', 'SalBow1G2576' => 'sbo', 'SalBow1G2754' => 'sbo', 'SalBow1G2827' => 'sbo', 'SalBow1G2831' => 'sbo', 'SalBow1G2910' => 'sbo', 'SalBow1G2945' => 'sbo', 'SalBow1G3020' => 'sbo', 'SalBow1G3183' => 'sbo', 'SalBow1G3389' => 'sbo', 'SalBow1G3510' => 'sbo', 'SalBow1G3518' => 'sbo', 'SalBow1G3605' => 'sbo', 'SalBow1G3622' => 'sbo', 'SalBow1G3643' => 'sbo', 'SalBow1G3718' => 'sbo', 'SalBow1G3764' => 'sbo', 'SalBow1G3845' => 'sbo', 'SalBow1G4029' => 'sbo', 'SalBow1G4107' => 'sbo', 'SalBow1G4198' => 'sbo', 'SalBow1G4348' => 'sbo', 'SalBow1G4404' => 'sbo', 'SalBow1G4570' => 'sbo', 'SalBow1G4784' => 'sbo', 'SalBow1G4824' => 'sbo', 'SalBow1G4834' => 'sbo', 'SalBow1G5037' => 'sbo', 'SalBow1G5143' => 'sbo', 'SalBow1G5149' => 'sbo', 'SalBow1G5153' => 'sbo', 'SalBow1G5397' => 'sbo', 'SalBow1G5440' => 'sbo', 'SalBow1G5443' => 'sbo', 'SalBow1G5490' => 'sbo', 'SalBow1G5509' => 'sbo', 'SalBow1G5600' => 'sbo', 'SalBow1G5634' => 'sbo', 'SalBow1G5928' => 'sbo', 'SalBow1G6170' => 'sbo', 'SalBow1G6317' => 'sbo', 'SalBow1G6441' => 'sbo', 'SalBow1G6584' => 'sbo', 'SalBow1G6675' => 'sbo', 'SalBow1G6707' => 'sbo', 'SalBow1G7051' => 'sbo', 'SalBow1G7095' => 'sbo', 'SalBow1G7130' => 'sbo', 'SalBow1G7173' => 'sbo', 'SalBow1G7333' => 'sbo', 'SalBow1G7348' => 'sbo', 'SalBow1G7654' => 'sbo', 'SalBow1G7761' => 'sbo', 'SalBow1G7767' => 'sbo', 'SalBow1G8126' => 'sbo', 'SalBow1G8279' => 'sbo', 'SalBow1G8327' => 'sbo', 'SalBow1G8437' => 'sbo', 'SalBow1G8536' => 'sbo', 'SalBow1G8559' => 'sbo', 'SalBow1G8745' => 'sbo', 'SalBow2G0089' => 'sbo', 'SalBow2G0131' => 'sbo', 'SalBow2G0446' => 'sbo', 'SalBow2G0659' => 'sbo', 'SalBow2G0915' => 'sbo', 'SalBow2G0962' => 'sbo', 'SalBow2G1007' => 'sbo', 'SalBow2G1033' => 'sbo', 'SalBow2G1078' => 'sbo', 'SalBow2G1250' => 'sbo', 'SalBow2G1421' => 'sbo', 'SalBow2G1984' => 'sbo', 'SalBow2G2590' => 'sbo', 'SalBow2G2729' => 'sbo', 'SalBow2G3007' => 'sbo', 'SalBow2G3288' => 'sbo', 'SalBow2G3299' => 'sbo', 'SalBow2G3387' => 'sbo', 'SalBow2G3485' => 'sbo', 'SalBow3G0135' => 'sbo', 'SalBow3G0150' => 'sbo', 'SalBow3G0286' => 'sbo', 'SalBow3G0377' => 'sbo', 'SalBow3G0677' => 'sbo', 'SalBow3G0831' => 'sbo', 'SalBow3G0865' => 'sbo', 'SalBow3G0897' => 'sbo', 'SalBow3G0962' => 'sbo', 'SalBow3G1364' => 'sbo', 'SalBow3G1447' => 'sbo', 'SalBow3G1503' => 'sbo', 'SalBow3G1592' => 'sbo', 'SalBow3G1653' => 'sbo', 'SalBow3G1754' => 'sbo', 'SalBow3G1922' => 'sbo', 'SalBow3G2271' => 'sbo', 'SalBow3G2290' => 'sbo', 'SalBow3G2428' => 'sbo', 'SalBow3G2482' => 'sbo', 'SalBow3G2538' => 'sbo', 'SalBow3G2551' => 'sbo', 'SalBow3G2579' => 'sbo', 'SalBow3G2623' => 'sbo', 'SalBow3G2653' => 'sbo', 'SalBow3G2866' => 'sbo', 'SalBow3G2995' => 'sbo', 'SalBow3G3511' => 'sbo', 'SalBow3G3527' => 'sbo', 'SalBow3G3693' => 'sbo', 'SalBow3G3963' => 'sbo', 'SalBow3G4052' => 'sbo', 'SalBow3G4224' => 'sbo', 'SalBow3G4341' => 'sbo', 'SalBow3G4357' => 'sbo', 'SalBow4G0152' => 'sbo', 'SalBow4G0486' => 'sbo', 'SalBow4G0525' => 'sbo', 'SalBow4G0714' => 'sbo', 'SalBow4G0904' => 'sbo', 'SalBow4G1143' => 'sbo', 'SalBow4G1224' => 'sbo', 'SalBow4G1662' => 'sbo', 'SalBow4G1798' => 'sbo', 'SalBow4G1822' => 'sbo', 'SalBow4G1909' => 'sbo', 'SalBow4G1933' => 'sbo', 'SalBow4G1976' => 'sbo', 'SalBow4G2005' => 'sbo', 'SalBow4G2018' => 'sbo', 'SalBow4G2128' => 'sbo', 'SalBow4G2271' => 'sbo', 'SalBow4G2546' => 'sbo', 'SalBow4G2570' => 'sbo', 'SalBow4G2650' => 'sbo', 'SalBow4G2753' => 'sbo', 'SalBow4G2764' => 'sbo', 'SalBow4G2980' => 'sbo', 'SalBow4G2983' => 'sbo', 'SalBow4G3215' => 'sbo', 'SalBow5G0210' => 'sbo', 'SalBow5G0271' => 'sbo', 'SalBow5G0311' => 'sbo', 'SalBow5G0321' => 'sbo', 'SalBow5G0367' => 'sbo', 'SalBow5G0520' => 'sbo', 'SalBow5G0524' => 'sbo', 'SalBow5G0789' => 'sbo', 'SalBow5G0821' => 'sbo', 'SalBow5G0838' => 'sbo', 'SalBow5G0852' => 'sbo', 'SalBow5G0856' => 'sbo', 'SalBow5G0905' => 'sbo', 'SalBow5G1495' => 'sbo', 'SalBow5G1545' => 'sbo', 'SalBow5G1595' => 'sbo', 'SalBow5G1658' => 'sbo', 'SalBow5G1670' => 'sbo', 'SalBow5G1845' => 'sbo', 'SalBow5G2192' => 'sbo', 'SalBow5G2217' => 'sbo', 'SalBow5G2240' => 'sbo', 'SalBow5G2252' => 'sbo', 'SalBow5G2362' => 'sbo', 'SalBow5G2427' => 'sbo', 'SalBow5G2846' => 'sbo', 'SalBow5G3196' => 'sbo', 'SalBow5G3608' => 'sbo', 'SalBow5G3612' => 'sbo', 'SalBow5G3613' => 'sbo', 'SalBow5G3668' => 'sbo', 'SalBow5G3710' => 'sbo', 'SalBow5G3872' => 'sbo', 'SalBow5G3878' => 'sbo', 'SalBow5G3883' => 'sbo', 'SalBow5G3983' => 'sbo', 'SalBow5G4042' => 'sbo', 'SalBow5G4150' => 'sbo', 'SalBow5G4177' => 'sbo', 'SalBow5G4409' => 'sbo', 'SalBow5G4457' => 'sbo', 'SalBow5G4473' => 'sbo', 'SalBow5G4522' => 'sbo', 'SalBow5G4553' => 'sbo', 'SalBow5G4661' => 'sbo', 'SalBow5G4807' => 'sbo', 'SalBow5G4836' => 'sbo', 'SalBow5G4848' => 'sbo', 'SalBow5G4918' => 'sbo', 'SalBow5G5085' => 'sbo', 'SalBow5G5393' => 'sbo', 'SalBow5G5533' => 'sbo', 'SalBow5G5644' => 'sbo', 'SalBow5G5658' => 'sbo', 'SalBow6G0147' => 'sbo', 'SalBow6G0304' => 'sbo', 'SalBow6G0525' => 'sbo', 'SalBow6G0636' => 'sbo', 'SalBow6G0751' => 'sbo', 'SalBow6G1142' => 'sbo', 'SalBow6G1152' => 'sbo', 'SalBow6G1172' => 'sbo', 'SalBow6G1198' => 'sbo', 'SalBow6G1366' => 'sbo', 'SalBow6G1413' => 'sbo', 'SalBow6G1430' => 'sbo', 'SalBow6G1566' => 'sbo', 'SalBow6G1593' => 'sbo', 'SalBow6G1625' => 'sbo', 'SalBow6G1781' => 'sbo', 'SalBow6G1803' => 'sbo', 'SalBow6G1809' => 'sbo', 'SalBow6G1939' => 'sbo', 'SalBow6G2069' => 'sbo', 'SalBow6G2724' => 'sbo', 'SalBow6G3162' => 'sbo', 'SalBow6G3315' => 'sbo', 'SalBow6G3451' => 'sbo', 'SalBow6G3695' => 'sbo', 'SalBow6G3814' => 'sbo', 'SalBow6G3847' => 'sbo', 'SalBow6G3873' => 'sbo', 'SalBow6G4019' => 'sbo', 'SalBow6G4029' => 'sbo', 'SalBow6G4147' => 'sbo', 'SalBow6G4237' => 'sbo', 'SalBow6G4352' => 'sbo', 'SalBow6G4430' => 'sbo', 'SalBow6G4575' => 'sbo', 'SalBow6G5143' => 'sbo', 'SalBow6G5185' => 'sbo', 'SalBow6G5197' => 'sbo', 'SalBow6G5604' => 'sbo', 'SalBow6G5606' => 'sbo', 'SalBow6G5637' => 'sbo', 'SalBow6G5677' => 'sbo', 'SalBow6G5830' => 'sbo', 'SalBow6G7069' => 'sbo', 'SalBow7G0181' => 'sbo', 'SalBow7G0240' => 'sbo', 'SalBow7G0358' => 'sbo', 'SalBow7G0674' => 'sbo', 'SalBow7G0922' => 'sbo', 'SalBow7G0927' => 'sbo', 'SalBow7G0971' => 'sbo', 'SalBow7G1045' => 'sbo', 'SalBow7G1265' => 'sbo', 'SalBow7G1375' => 'sbo', 'SalBow7G1377' => 'sbo', 'SalBow7G1451' => 'sbo', 'SalBow7G1716' => 'sbo', 'SalBow7G1794' => 'sbo', 'SalBow7G1825' => 'sbo', 'SalBow7G1855' => 'sbo', 'SalBow7G1933' => 'sbo', 'SalBow7G2171' => 'sbo', 'SalBow7G2702' => 'sbo', 'SalBow7G2711' => 'sbo', 'SalBow7G2815' => 'sbo', 'SalBow7G2851' => 'sbo', 'SalBow7G2886' => 'sbo', 'SalBow7G2985' => 'sbo', 'SalBow7G3013' => 'sbo', 'SalBow7G3180' => 'sbo', 'SalBow7G3255' => 'sbo', 'SalBow7G3298' => 'sbo', 'SalBow7G3366' => 'sbo', 'SalBow7G3547' => 'sbo', 'SalBow7G3658' => 'sbo', 'SalBow7G3707' => 'sbo', 'SalBow7G3781' => 'sbo', 'SalBow7G3842' => 'sbo', 'SalBow7G3853' => 'sbo', 'SalBow7G3856' => 'sbo', 'SalBow7G3875' => 'sbo', 'SalBow7G4004' => 'sbo', 'SalBow7G4321' => 'sbo', 'SalBow7G4329' => 'sbo', 'SalBow7G4333' => 'sbo', 'SalBow7G4468' => 'sbo', 'SalBow7G4658' => 'sbo', 'SalBow7G4733' => 'sbo', 'SalBow7G4753' => 'sbo', 'SalBow8G0202' => 'sbo', 'SalBow8G0277' => 'sbo', 'SalBow8G0570' => 'sbo', 'SalBow8G0645' => 'sbo', 'SalBow8G0805' => 'sbo', 'SalBow8G0871' => 'sbo', 'SalBow8G0980' => 'sbo', 'SalBow8G1302' => 'sbo', 'SalBow8G1443' => 'sbo', 'SalBow8G1756' => 'sbo', 'SalBow8G1791' => 'sbo', 'SalBow8G1905' => 'sbo', 'SalBow8G2037' => 'sbo', 'SalBow8G2084' => 'sbo', 'SalBow8G2106' => 'sbo', 'SalBow8G2157' => 'sbo', 'SalBow8G2431' => 'sbo', 'SalBow8G2558' => 'sbo', 'SalBow8G2995' => 'sbo', 'SalBow8G3063' => 'sbo', 'SalBow8G3128' => 'sbo', 'SalBow8G3187' => 'sbo', 'SalBow8G3228' => 'sbo', 'SalBow8G3258' => 'sbo', 'SalBow8G3305' => 'sbo', 'SalBow8G3785' => 'sbo', 'SalBow8G3877' => 'sbo', 'SalBow8G4092' => 'sbo', 'SalBow8G4094' => 'sbo', 'SalBow8G4248' => 'sbo', 'SalBow8G4279' => 'sbo', 'SalBow8G4337' => 'sbo', 'SalBow8G4574' => 'sbo', 'SalBow8G4616' => 'sbo', 'SalBow8G4948' => 'sbo', 'SalBow8G5200' => 'sbo', 'SalBow8G5322' => 'sbo', 'SalBow8G5508' => 'sbo' ) ) $data_type = 'gene_family' $gf_id = 'HOM05D001898' $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001898' ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_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 = 'HOM05D001898' $data_identifier_description = '' $adt_title = 'Gene Family' $adt = 'GENE_FAMILY' $is_selected = 'selected='selected'' $parameter = array( 'data_type' => 'GENE_FAMILY', 'data_value' => 'HOM05D001898' )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