If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ), '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 ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ), 'gf_id' => 'HOM05D001383', 'gf_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' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), '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' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001383' ), 'data_identifier' => 'HOM05D001383', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001383', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '453', 'num_species' => '25' ) $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 ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'Actinidia16536' => 'ach', 'Atru.chr1.3458' => 'acertr', 'Atru.chr9.1876' => 'acertr', 'CANSAT01G0897' => 'cansat', 'CANSAT25G0977' => 'cansat', 'CANSAT25G2075' => 'cansat', 'CANSAT25G2519' => 'cansat', 'CANSAT56G3744' => 'cansat', 'CANSAT78G1368' => 'cansat', 'CANSAT80G0185' => 'cansat', 'CANSAT80G1681' => 'cansat', 'CANSAT80G2566' => 'cansat', 'Cc08_g06350' => 'ccan', 'DCAR_000974' => 'dca', 'DCAR_001034' => 'dca', 'DCAR_001123' => 'dca', 'DCAR_001137' => 'dca', 'DCAR_001866' => 'dca', 'DCAR_006044' => 'dca', 'DCAR_009827' => 'dca', 'DCAR_009895' => 'dca', 'DCAR_010613' => 'dca', 'DCAR_011158' => 'dca', 'DCAR_012605' => 'dca', 'DCAR_014868' => 'dca', 'DCAR_015227' => 'dca', 'DCAR_015412' => 'dca', 'DCAR_015783' => 'dca', 'DCAR_015948' => 'dca', 'DCAR_017338' => 'dca', 'DCAR_017399' => 'dca', 'DCAR_017406' => 'dca', 'DCAR_017542' => 'dca', 'DCAR_017568' => 'dca', 'DCAR_017629' => 'dca', 'DCAR_017795' => 'dca', 'DCAR_022777' => 'dca', 'DCAR_022822' => 'dca', 'DCAR_022824' => 'dca', 'DCAR_023033' => 'dca', 'DCAR_023064' => 'dca', 'DCAR_023922' => 'dca', 'DCAR_025423' => 'dca', 'DCAR_026361' => 'dca', 'DCAR_026902' => 'dca', 'DCAR_026951' => 'dca', 'DCAR_027306' => 'dca', 'DCAR_027645' => 'dca', 'DCAR_027994' => 'dca', 'DCAR_028160' => 'dca', 'DCAR_028505' => 'dca', 'DCAR_028616' => 'dca', 'DCAR_028751' => 'dca', 'DCAR_029049' => 'dca', 'DCAR_029331' => 'dca', 'DCAR_029717' => 'dca', 'DCAR_029782' => 'dca', 'DCAR_029783' => 'dca', 'DCAR_029798' => 'dca', 'DCAR_029935' => 'dca', 'DCAR_030088' => 'dca', 'DCAR_030173' => 'dca', 'DCAR_030244' => 'dca', 'DCAR_031247' => 'dca', 'DCAR_031289' => 'dca', 'DCAR_031395' => 'dca', 'DCAR_031437' => 'dca', 'DCAR_031528' => 'dca', 'Dinv01459' => 'din', 'Dinv03416' => 'din', 'Dinv05207' => 'din', 'Dinv05615' => 'din', 'Dinv09832' => 'din', 'Dinv12298' => 'din', 'Dinv24546' => 'din', 'Dinv26432' => 'din', 'Dinv31506' => 'din', 'Dinv41031' => 'din', 'ECA238G0483' => 'eca', 'ECA238G1062' => 'eca', 'ECA246G1994' => 'eca', 'Eucgr.A00047' => 'egr', 'Eucgr.A00901' => 'egr', 'Eucgr.A01387' => 'egr', 'Eucgr.A01677' => 'egr', 'Eucgr.B01060' => 'egr', 'Eucgr.B01204' => 'egr', 'Eucgr.B01520' => 'egr', 'Eucgr.B01616' => 'egr', 'Eucgr.C01025' => 'egr', 'Eucgr.C01434' => 'egr', 'Eucgr.C01594' => 'egr', 'Eucgr.C02166' => 'egr', 'Eucgr.D00216' => 'egr', 'Eucgr.D00391' => 'egr', 'Eucgr.D01113' => 'egr', 'Eucgr.E01520' => 'egr', 'Eucgr.E02526' => 'egr', 'Eucgr.E03477' => 'egr', 'Eucgr.E03636' => 'egr', 'Eucgr.H00233' => 'egr', 'Eucgr.H02341' => 'egr', 'Eucgr.H02671' => 'egr', 'Eucgr.H02800' => 'egr', 'Eucgr.H02949' => 'egr', 'Eucgr.J01886' => 'egr', 'Eucgr.J03169' => 'egr', 'Eucgr.K02370' => 'egr', 'Eucgr.L00016' => 'egr', 'Eucgr.L01275' => 'egr', 'Eucgr.L01799' => 'egr', 'Eucgr.L01870' => 'egr', 'Eucgr.L02007' => 'egr', 'Eucgr.L02287' => 'egr', 'Eucgr.L02571' => 'egr', 'Glyma.01G130300' => 'gma', 'Gohir.A01G116801' => 'ghi', 'Gohir.A01G145614' => 'ghi', 'Gohir.A01G201950' => 'ghi', 'Gohir.A01G209050' => 'ghi', 'Gohir.A05G239250' => 'ghi', 'Gohir.A06G141133' => 'ghi', 'Gohir.A08G091300' => 'ghi', 'Gohir.A08G119166' => 'ghi', 'Gohir.A08G203366' => 'ghi', 'Gohir.A09G200200' => 'ghi', 'Gohir.A10G090350' => 'ghi', 'Gohir.A10G091750' => 'ghi', 'Gohir.A10G122250' => 'ghi', 'Gohir.A10G176350' => 'ghi', 'Gohir.A12G071433' => 'ghi', 'Gohir.A12G210350' => 'ghi', 'Gohir.A13G017966' => 'ghi', 'Gohir.A13G041750' => 'ghi', 'Gohir.A13G051550' => 'ghi', 'Gohir.A13G143901' => 'ghi', 'Gohir.A13G164050' => 'ghi', 'Gohir.D08G061401' => 'ghi', 'Gohir.D10G135250' => 'ghi', 'Gohir.D11G247150' => 'ghi', 'Gohir.D12G069001' => 'ghi', 'Gorai.008G075500' => 'gra', 'HanXRQChr01g0001121' => 'han', 'HanXRQChr02g0055571' => 'han', 'HanXRQChr03g0077471' => 'han', 'HanXRQChr04g0101711' => 'han', 'HanXRQChr04g0102831' => 'han', 'HanXRQChr10g0298741' => 'han', 'HanXRQChr11g0326401' => 'han', 'HanXRQChr12g0370741' => 'han', 'HanXRQChr14g0429441' => 'han', 'HanXRQChr14g0440841' => 'han', 'HanXRQChr15g0494381' => 'han', 'HanXRQChr17g0565131' => 'han', 'HanXRQChr17g0565841' => 'han', 'Hma1.2p1_0008F-1.1_g005620' => 'hma', 'Hma1.2p1_0012F.1_g007370' => 'hma', 'Hma1.2p1_0012F.1_g007535' => 'hma', 'Hma1.2p1_0013F.1_g009020' => 'hma', 'Hma1.2p1_0013F.1_g009040' => 'hma', 'Hma1.2p1_0013F.1_g009050' => 'hma', 'Hma1.2p1_0013F.1_g009056' => 'hma', 'Hma1.2p1_0013F.1_g009060' => 'hma', 'Hma1.2p1_0048F.1_g028060' => 'hma', 'Hma1.2p1_0071F.1_g038200' => 'hma', 'Hma1.2p1_0101F.1_g049470' => 'hma', 'Hma1.2p1_0128F.1_g059990' => 'hma', 'Hma1.2p1_0151F.1_g067190' => 'hma', 'Hma1.2p1_0172F.1_g075980' => 'hma', 'Hma1.2p1_0185F.1_g081420' => 'hma', 'Hma1.2p1_0198F.1_g085550' => 'hma', 'Hma1.2p1_0211F.1_g089820' => 'hma', 'Hma1.2p1_0224F.1_g094550' => 'hma', 'Hma1.2p1_0230F.1_g097240' => 'hma', 'Hma1.2p1_0257F.1_g103490' => 'hma', 'Hma1.2p1_0283F.1_g113450' => 'hma', 'Hma1.2p1_0283F.1_g113490' => 'hma', 'Hma1.2p1_0289F.1_g114350' => 'hma', 'Hma1.2p1_0362F.1_g136570' => 'hma', 'Hma1.2p1_0430F.1_g151240' => 'hma', 'Hma1.2p1_0470F.1_g159220' => 'hma', 'Hma1.2p1_0512F.1_g169330' => 'hma', 'Hma1.2p1_0540F.1_g174690' => 'hma', 'Hma1.2p1_0717F.1_g208200' => 'hma', 'Hma1.2p1_0785F.1_g217480' => 'hma', 'Hma1.2p1_0787F.1_g217983' => 'hma', 'Hma1.2p1_0896F.1_g233840' => 'hma', 'Hma1.2p1_1041F.1_g251030' => 'hma', 'Hma1.2p1_1094F.1_g256460' => 'hma', 'Hma1.2p1_1098F.1_g256770' => 'hma', 'Hma1.2p1_1105F.1_g257590' => 'hma', 'Hma1.2p1_1195F.1_g265850' => 'hma', 'Hma1.2p1_1219F.1_g267960' => 'hma', 'Hma1.2p1_1389F.1_g280030' => 'hma', 'Hma1.2p1_1407F.1_g281470' => 'hma', 'Hma1.2p1_1481F.1_g286180' => 'hma', 'Hma1.2p1_1707F.1_g298530' => 'hma', 'Hma1.2p1_1793F.1_g302610' => 'hma', 'Hma1.2p1_1902F.1_g307070' => 'hma', 'Hma1.2p1_2466F.1_g322651' => 'hma', 'Hma1.2p1_2508F.1_g323550' => 'hma', 'Hma1.2p1_2569F.1_g324543' => 'hma', 'Hma1.2p1_2631F.1_g325760' => 'hma', 'Hma1.2p1_2672F.1_g326690' => 'hma', 'Hma1.2p1_2779F.1_g328290' => 'hma', 'Lsat_1_v5_gn_0_40601' => 'lsa', 'Lsat_1_v5_gn_0_6841' => 'lsa', 'Lsat_1_v5_gn_1_1101' => 'lsa', 'Lsat_1_v5_gn_1_121661' => 'lsa', 'Lsat_1_v5_gn_1_7320' => 'lsa', 'Lsat_1_v5_gn_1_96540' => 'lsa', 'Lsat_1_v5_gn_2_106981' => 'lsa', 'Lsat_1_v5_gn_2_107821' => 'lsa', 'Lsat_1_v5_gn_2_119760' => 'lsa', 'Lsat_1_v5_gn_3_4400' => 'lsa', 'Lsat_1_v5_gn_3_44981' => 'lsa', 'Lsat_1_v5_gn_3_93880' => 'lsa', 'Lsat_1_v5_gn_4_141301' => 'lsa', 'Lsat_1_v5_gn_4_176701' => 'lsa', 'Lsat_1_v5_gn_4_25260' => 'lsa', 'Lsat_1_v5_gn_4_26020' => 'lsa', 'Lsat_1_v5_gn_4_57040' => 'lsa', 'Lsat_1_v5_gn_4_58240' => 'lsa', 'Lsat_1_v5_gn_4_67121' => 'lsa', 'Lsat_1_v5_gn_4_701' => 'lsa', 'Lsat_1_v5_gn_5_119041' => 'lsa', 'Lsat_1_v5_gn_6_80580' => 'lsa', 'Lsat_1_v5_gn_6_94861' => 'lsa', 'Lsat_1_v5_gn_8_117981' => 'lsa', 'Lsat_1_v5_gn_8_76301' => 'lsa', 'Lsat_1_v5_gn_8_76981' => 'lsa', 'Lsat_1_v5_gn_8_84280' => 'lsa', 'Lsat_1_v5_gn_9_105340' => 'lsa', 'Lsat_1_v5_gn_9_111881' => 'lsa', 'Lsat_1_v5_gn_9_72040' => 'lsa', 'Lsat_1_v5_gn_9_96521' => 'lsa', 'Manes.13G089160' => 'mes', 'Manes.17G011733' => 'mes', 'Medtr1g039350' => 'mtr', 'Medtr1g070405' => 'mtr', 'Medtr2g008290' => 'mtr', 'Medtr2g017540' => 'mtr', 'Medtr3g045410' => 'mtr', 'Medtr5g021030' => 'mtr', 'Medtr8g070590' => 'mtr', 'Migut.A00997' => 'egut', 'Migut.B01125' => 'egut', 'Migut.E00885' => 'egut', 'Migut.L00955' => 'egut', 'Migut.M00684' => 'egut', 'Migut.O00432' => 'egut', 'Nitab4.5_0000115g0400' => 'nta', 'Nitab4.5_0000167g0190' => 'nta', 'Nitab4.5_0000216g0400' => 'nta', 'Nitab4.5_0000256g0020' => 'nta', 'Nitab4.5_0000503g0030' => 'nta', 'Nitab4.5_0000620g0220' => 'nta', 'Nitab4.5_0000625g0090' => 'nta', 'Nitab4.5_0000779g0020' => 'nta', 'Nitab4.5_0001650g0110' => 'nta', 'Nitab4.5_0001904g0050' => 'nta', 'Nitab4.5_0001977g0130' => 'nta', 'Nitab4.5_0002043g0110' => 'nta', 'Nitab4.5_0002145g0050' => 'nta', 'Nitab4.5_0002335g0050' => 'nta', 'Nitab4.5_0003987g0040' => 'nta', 'Nitab4.5_0003998g0050' => 'nta', 'Nitab4.5_0004340g0060' => 'nta', 'Nitab4.5_0004670g0050' => 'nta', 'Nitab4.5_0005557g0020' => 'nta', 'Nitab4.5_0007325g0010' => 'nta', 'Nitab4.5_0007977g0060' => 'nta', 'Nitab4.5_0008032g0010' => 'nta', 'Oeu001038.1' => 'oeu', 'Oeu006956.1' => 'oeu', 'Oeu007477.1' => 'oeu', 'Oeu009049.1' => 'oeu', 'Oeu017282.1' => 'oeu', 'Oeu019153.1' => 'oeu', 'Oeu020415.1' => 'oeu', 'Oeu026062.1' => 'oeu', 'Oeu029619.1' => 'oeu', 'Oeu030844.1' => 'oeu', 'Oeu031331.1' => 'oeu', 'Oeu042598.1' => 'oeu', 'Oeu043155.1' => 'oeu', 'Oeu043460.1' => 'oeu', 'Oeu045500.1' => 'oeu', 'Oeu047978.1' => 'oeu', 'Oeu056267.1' => 'oeu', 'Peaxi162Scf00002g02917' => 'pax', 'Peaxi162Scf00006g00328' => 'pax', 'Peaxi162Scf00012g01429' => 'pax', 'Peaxi162Scf00039g00714' => 'pax', 'Peaxi162Scf00063g00023' => 'pax', 'Peaxi162Scf00064g02019' => 'pax', 'Peaxi162Scf00075g00085' => 'pax', 'Peaxi162Scf00079g02431' => 'pax', 'Peaxi162Scf00084g01219' => 'pax', 'Peaxi162Scf00091g00518' => 'pax', 'Peaxi162Scf00101g00219' => 'pax', 'Peaxi162Scf00109g00517' => 'pax', 'Peaxi162Scf00110g00156' => 'pax', 'Peaxi162Scf00145g00107' => 'pax', 'Peaxi162Scf00147g01910' => 'pax', 'Peaxi162Scf00171g00022' => 'pax', 'Peaxi162Scf00187g01114' => 'pax', 'Peaxi162Scf00191g00211' => 'pax', 'Peaxi162Scf00225g00101' => 'pax', 'Peaxi162Scf00273g01117' => 'pax', 'Peaxi162Scf00320g00217' => 'pax', 'Peaxi162Scf00323g00412' => 'pax', 'Peaxi162Scf00351g00017' => 'pax', 'Peaxi162Scf00365g00023' => 'pax', 'Peaxi162Scf00368g00111' => 'pax', 'Peaxi162Scf00434g00013' => 'pax', 'Peaxi162Scf00446g00005' => 'pax', 'Peaxi162Scf00465g00011' => 'pax', 'Peaxi162Scf00575g00045' => 'pax', 'Peaxi162Scf00578g00524' => 'pax', 'Peaxi162Scf00658g00010' => 'pax', 'Peaxi162Scf00699g00025' => 'pax', 'Peaxi162Scf00723g00110' => 'pax', 'Peaxi162Scf00756g00016' => 'pax', 'Peaxi162Scf00795g00012' => 'pax', 'Peaxi162Scf00814g00243' => 'pax', 'Peaxi162Scf00884g00023' => 'pax', 'Peaxi162Scf00958g00004' => 'pax', 'Peaxi162Scf00990g00010' => 'pax', 'Peaxi162Scf01021g00121' => 'pax', 'Peaxi162Scf01302g00024' => 'pax', 'Peaxi162Scf01316g00007' => 'pax', 'Peaxi162Scf01414g00015' => 'pax', 'Prupe.1G465700' => 'ppe', 'Prupe.3G035600' => 'ppe', 'Prupe.5G025800' => 'ppe', 'Prupe.5G194900' => 'ppe', 'Prupe.7G055500' => 'ppe', 'Prupe.8G073400' => 'ppe', 'Prupe.8G093700' => 'ppe', 'QL06p049616' => 'qlo', 'QL09p032030' => 'qlo', 'QL09p043658' => 'qlo', 'QL11p034761' => 'qlo', 'Rhsim01G0020400' => 'rsi', 'Rhsim04G0160000' => 'rsi', 'Rhsim08G0011500' => 'rsi', 'Rhsim11G0046300' => 'rsi', 'SGA_v2.0_scaffold100G29657' => 'sas', 'SGA_v2.0_scaffold102G29873' => 'sas', 'SGA_v2.0_scaffold102G29875' => 'sas', 'SGA_v2.0_scaffold104G30162' => 'sas', 'SGA_v2.0_scaffold10G05216' => 'sas', 'SGA_v2.0_scaffold10G05287' => 'sas', 'SGA_v2.0_scaffold10G05311' => 'sas', 'SGA_v2.0_scaffold116G32241' => 'sas', 'SGA_v2.0_scaffold121G33077' => 'sas', 'SGA_v2.0_scaffold121G33159' => 'sas', 'SGA_v2.0_scaffold123G33399' => 'sas', 'SGA_v2.0_scaffold12G06232' => 'sas', 'SGA_v2.0_scaffold131G34393' => 'sas', 'SGA_v2.0_scaffold133G34609' => 'sas', 'SGA_v2.0_scaffold135G34916' => 'sas', 'SGA_v2.0_scaffold13G06336' => 'sas', 'SGA_v2.0_scaffold13G06411' => 'sas', 'SGA_v2.0_scaffold148G36478' => 'sas', 'SGA_v2.0_scaffold14G06948' => 'sas', 'SGA_v2.0_scaffold14G07096' => 'sas', 'SGA_v2.0_scaffold14G07112' => 'sas', 'SGA_v2.0_scaffold152G36801' => 'sas', 'SGA_v2.0_scaffold157G37340' => 'sas', 'SGA_v2.0_scaffold157G37387' => 'sas', 'SGA_v2.0_scaffold15G07207' => 'sas', 'SGA_v2.0_scaffold167G38437' => 'sas', 'SGA_v2.0_scaffold174G39284' => 'sas', 'SGA_v2.0_scaffold179G39548' => 'sas', 'SGA_v2.0_scaffold17G08080' => 'sas', 'SGA_v2.0_scaffold185G40087' => 'sas', 'SGA_v2.0_scaffold1G00177' => 'sas', 'SGA_v2.0_scaffold1G00312' => 'sas', 'SGA_v2.0_scaffold206G41860' => 'sas', 'SGA_v2.0_scaffold228G43262' => 'sas', 'SGA_v2.0_scaffold22G09703' => 'sas', 'SGA_v2.0_scaffold22G09706' => 'sas', 'SGA_v2.0_scaffold22G09845' => 'sas', 'SGA_v2.0_scaffold238G43895' => 'sas', 'SGA_v2.0_scaffold23G10087' => 'sas', 'SGA_v2.0_scaffold23G10162' => 'sas', 'SGA_v2.0_scaffold2426G54118' => 'sas', 'SGA_v2.0_scaffold257G45698' => 'sas', 'SGA_v2.0_scaffold25G11077' => 'sas', 'SGA_v2.0_scaffold268G46210' => 'sas', 'SGA_v2.0_scaffold27G11592' => 'sas', 'SGA_v2.0_scaffold27G11596' => 'sas', 'SGA_v2.0_scaffold27G11692' => 'sas', 'SGA_v2.0_scaffold283G46984' => 'sas', 'SGA_v2.0_scaffold28G12041' => 'sas', 'SGA_v2.0_scaffold29G12301' => 'sas', 'SGA_v2.0_scaffold309G48181' => 'sas', 'SGA_v2.0_scaffold310G48213' => 'sas', 'SGA_v2.0_scaffold319G48539' => 'sas', 'SGA_v2.0_scaffold31G12734' => 'sas', 'SGA_v2.0_scaffold333G49004' => 'sas', 'SGA_v2.0_scaffold364G49972' => 'sas', 'SGA_v2.0_scaffold36G14475' => 'sas', 'SGA_v2.0_scaffold374G50222' => 'sas', 'SGA_v2.0_scaffold38G14969' => 'sas', 'SGA_v2.0_scaffold38G15053' => 'sas', 'SGA_v2.0_scaffold38G15080' => 'sas', 'SGA_v2.0_scaffold3G01609' => 'sas', 'SGA_v2.0_scaffold3G01692' => 'sas', 'SGA_v2.0_scaffold3G01769' => 'sas', 'SGA_v2.0_scaffold3G01779' => 'sas', 'SGA_v2.0_scaffold43G16251' => 'sas', 'SGA_v2.0_scaffold45G16985' => 'sas', 'SGA_v2.0_scaffold45G17224' => 'sas', 'SGA_v2.0_scaffold46G17446' => 'sas', 'SGA_v2.0_scaffold472G52098' => 'sas', 'SGA_v2.0_scaffold4913G54564' => 'sas', 'SGA_v2.0_scaffold4G02359' => 'sas', 'SGA_v2.0_scaffold51G18897' => 'sas', 'SGA_v2.0_scaffold54G19529' => 'sas', 'SGA_v2.0_scaffold552G52878' => 'sas', 'SGA_v2.0_scaffold55G19721' => 'sas', 'SGA_v2.0_scaffold55G19817' => 'sas', 'SGA_v2.0_scaffold57G20130' => 'sas', 'SGA_v2.0_scaffold57G20235' => 'sas', 'SGA_v2.0_scaffold59G20728' => 'sas', 'SGA_v2.0_scaffold59G20773' => 'sas', 'SGA_v2.0_scaffold5G02952' => 'sas', 'SGA_v2.0_scaffold5G03007' => 'sas', 'SGA_v2.0_scaffold5G03034' => 'sas', 'SGA_v2.0_scaffold64G22015' => 'sas', 'SGA_v2.0_scaffold670G53420' => 'sas', 'SGA_v2.0_scaffold68G22969' => 'sas', 'SGA_v2.0_scaffold711G53501' => 'sas', 'SGA_v2.0_scaffold77G25227' => 'sas', 'SGA_v2.0_scaffold780G53589' => 'sas', 'SGA_v2.0_scaffold79G25662' => 'sas', 'SGA_v2.0_scaffold80G25824' => 'sas', 'SGA_v2.0_scaffold84G26505' => 'sas', 'SGA_v2.0_scaffold850G53668' => 'sas', 'SGA_v2.0_scaffold88G27215' => 'sas', 'SGA_v2.0_scaffold89G27595' => 'sas', 'vmacro00766' => 'vma', 'vmacro00770' => 'vma', 'vmacro12616' => 'vma', 'vmacro15909' => 'vma', 'vmacro20243' => 'vma', 'vmacro20312' => 'vma', 'vmacro20400' => 'vma', 'vmacro21229' => 'vma', 'vmacro21961' => 'vma' ) $gf_id = 'HOM05D001383' $gf_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' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $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' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001383' ) $data_identifier = 'HOM05D001383' $data_type = 'gf_id' $species_gene_counts = array( 'ach' => (int) 1, 'acertr' => (int) 2, 'cansat' => (int) 9, 'ccan' => (int) 1, 'dca' => (int) 55, 'din' => (int) 10, 'eca' => (int) 3, 'egr' => (int) 34, 'gma' => (int) 1, 'ghi' => (int) 25, 'gra' => (int) 1, 'han' => (int) 13, 'hma' => (int) 50, 'lsa' => (int) 31, 'mes' => (int) 2, 'mtr' => (int) 7, 'egut' => (int) 6, 'nta' => (int) 22, 'oeu' => (int) 17, 'pax' => (int) 43, 'ppe' => (int) 7, 'qlo' => (int) 4, 'rsi' => (int) 4, 'sas' => (int) 96, 'vma' => (int) 9 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro21961' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 0