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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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) 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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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) 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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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) 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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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) 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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $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' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ), '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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ), 'gf_id' => 'HOM05D001070', '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' => 'HOM05D001070' ), 'data_identifier' => 'HOM05D001070', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001070', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '64' ) $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( 'A04p09360' => 'bna', 'AL3G14370' => 'aly', 'AL5G20280' => 'aly', 'AL7G50370' => 'aly', 'Aqoxy4G02031' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0FQ6JR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.13XSJR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1Y8W5R' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.9N2MB2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B1X1LX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.DFZ8YY' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.IUHB90' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.LH3NEH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R84DZU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WRB0Y3' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XG10WT' => 'arhy', 'AT2G07565' => 'ath', 'AT2G07739' => 'ath', 'ATMG00370' => 'ath', 'Atru.chr8.922' => 'acertr', 'BcaB03g16407' => 'bca', 'BcaC04g20701' => 'bca', 'BolC2t08925H' => 'bol', 'BolC2t10590H' => 'bol', 'BolC2t10603H' => 'bol', 'BolC2t10604H' => 'bol', 'BolC2t10605H' => 'bol', 'BolC2t10608H' => 'bol', 'BolC7t43860H' => 'bol', 'BolC9t56811H' => 'bol', 'BolC9t56919H' => 'bol', 'BolC9t56920H' => 'bol', 'BolSC28t60312H' => 'bol', 'BolSC28t60368H' => 'bol', 'BolSC29t60500H' => 'bol', 'BolSC29t60512H' => 'bol', 'BolSC29t60513H' => 'bol', 'BolSC29t60542H' => 'bol', 'BolSC29t60552H' => 'bol', 'BolSC29t60620H' => 'bol', 'BolSC29t60623H' => 'bol', 'BolSC35t60685H' => 'bol', 'BolSC35t60686H' => 'bol', 'BolSC35t60697H' => 'bol', 'BolSC35t60698H' => 'bol', 'BolSC35t60710H' => 'bol', 'BolSC37t60788H' => 'bol', 'BolSC37t60799H' => 'bol', 'BolSC37t60800H' => 'bol', 'BolSC43t60809H' => 'bol', 'BolSC44t60817H' => 'bol', 'BolSC44t60828H' => 'bol', 'BolSC45t60902H' => 'bol', 'BolSC45t60903H' => 'bol', 'BolSC45t60915H' => 'bol', 'BolSC46t60964H' => 'bol', 'BolSC47t61060H' => 'bol', 'BolSC47t61061H' => 'bol', 'BolSC49t61136H' => 'bol', 'BolSC49t61149H' => 'bol', 'BraSC103t45423Z' => 'bra', 'BraSC138t45529Z' => 'bra', 'BraSC138t45540Z' => 'bra', 'BraSC143t45653Z' => 'bra', 'BraSC143t45654Z' => 'bra', 'BraSC159t45727Z' => 'bra', 'BraSC179t45778Z' => 'bra', 'BraSC25t45916Z' => 'bra', 'BraSC48t46237Z' => 'bra', 'BraSC48t46326Z' => 'bra', 'BraSC54t46367Z' => 'bra', 'BraSC58t46457Z' => 'bra', 'BraSC59t46505Z' => 'bra', 'BraSC59t46531Z' => 'bra', 'BraSC59t46532Z' => 'bra', 'BraSC59t46545Z' => 'bra', 'BraSC59t46556Z' => 'bra', 'C02p28780' => 'bna', 'C02p28790' => 'bna', 'C02p28800' => 'bna', 'C03p28320' => 'bna', 'C05p53850' => 'bna', 'C07p33480' => 'bna', 'C07p33490' => 'bna', 'C09p25520' => 'bna', 'C09p25530' => 'bna', 'C09p39290' => 'bna', 'C09p40290' => 'bna', 'CAN.G1045.8' => 'can', 'CAN.G1139.17' => 'can', 'CAN.G1185.5' => 'can', 'CAN.G1298.17' => 'can', 'CAN.G134.9' => 'can', 'CAN.G929.2' => 'can', 'CAN.G965.9' => 'can', 'CANSAT78G0545' => 'cansat', 'CARHR180460' => 'chi', 'CARHR180900' => 'chi', 'CARHR282400' => 'chi', 'CARHR282770' => 'chi', 'Ciclev10010879m.g' => 'ccl', 'Ciclev10013927m.g' => 'ccl', 'Ciclev10013978m.g' => 'ccl', 'Ciclev10013980m.g' => 'ccl', 'Ciclev10013987m.g' => 'ccl', 'Ciclev10013999m.g' => 'ccl', 'Ciclev10014002m.g' => 'ccl', 'Ciclev10014004m.g' => 'ccl', 'Ciclev10014005m.g' => 'ccl', 'Ciclev10027640m.g' => 'ccl', 'Ciclev10027641m.g' => 'ccl', 'Ciclev10027654m.g' => 'ccl', 'Ciclev10030452m.g' => 'ccl', 'CiPaw.01G098400' => 'cil', 'CiPaw.12G052500' => 'cil', 'ClCG04G001030' => 'cla', 'ClCG10G005990' => 'cla', 'ClCG11G009240' => 'cla', 'ClCG11G009250' => 'cla', 'ClCG11G009260' => 'cla', 'ClCG11G009270' => 'cla', 'Cpa.g.c35311' => 'cpa', 'Cpa.g.sc2189.1' => 'cpa', 'CsaV3_1G025490' => 'csa', 'CsaV3_1G025500' => 'csa', 'CsaV3_2G013000' => 'csa', 'CSS0017227' => 'camsi', 'CSS0027235' => 'camsi', 'DCAR_011103' => 'dca', 'DCAR_019125' => 'dca', 'DCAR_032544' => 'dca', 'Duzib256G0005' => 'dzi', 'EL10Ac1g01959' => 'bvu', 'EL10Ac2g02883' => 'bvu', 'EL10Ac4g08268' => 'bvu', 'EL10Ac4g08269' => 'bvu', 'EL10Ac5g11665' => 'bvu', 'EL10Ac7g17376' => 'bvu', 'EL10As15g24135' => 'bvu', 'EL10As1g23055' => 'bvu', 'Eucgr.I00434' => 'egr', 'Eucgr.L00730' => 'egr', 'FAN09G0308' => 'fan', 'FAN13G2309' => 'fan', 'Glyma.01G114300' => 'gma', 'Glyma.02G177300' => 'gma', 'Glyma.02G189000' => 'gma', 'Glyma.08G259600' => 'gma', 'Glyma.13G038800' => 'gma', 'Glyma.18G155800' => 'gma', 'Gohir.1Z049492' => 'ghi', 'Gohir.1Z049494' => 'ghi', 'Gohir.1Z050666' => 'ghi', 'Gohir.A02G108504' => 'ghi', 'Gohir.A03G072900' => 'ghi', 'Gohir.A04G053000' => 'ghi', 'Gohir.A04G057652' => 'ghi', 'Gohir.A05G323700' => 'ghi', 'Gohir.A09G039280' => 'ghi', 'Gohir.A09G045792' => 'ghi', 'Gohir.A09G046100' => 'ghi', 'Gohir.A09G216580' => 'ghi', 'Gohir.A10G117450' => 'ghi', 'Gohir.A11G056766' => 'ghi', 'Gohir.A11G056832' => 'ghi', 'Gohir.A11G193450' => 'ghi', 'Gohir.A13G082266' => 'ghi', 'Gohir.A13G086425' => 'ghi', 'Gohir.D01G134260' => 'ghi', 'Gohir.D03G074712' => 'ghi', 'Gohir.D04G101450' => 'ghi', 'Gohir.D05G248050' => 'ghi', 'Gohir.D06G105240' => 'ghi', 'Gohir.D08G133232' => 'ghi', 'Gohir.D09G079833' => 'ghi', 'Gohir.D10G139001' => 'ghi', 'Gohir.D11G237240' => 'ghi', 'Gohir.D11G334275' => 'ghi', 'Gohir.D11G334350' => 'ghi', 'Gohir.D12G091540' => 'ghi', 'Gohir.D13G086633' => 'ghi', 'Gohir.D13G124850' => 'ghi', 'Gohir.D13G161333' => 'ghi', 'Gorai.002G047700' => 'gra', 'Gorai.002G064200' => 'gra', 'Gorai.004G136300' => 'gra', 'Gorai.004G219800' => 'gra', 'Gorai.006G079500' => 'gra', 'Gorai.006G095000' => 'gra', 'Gorai.008G073700' => 'gra', 'Gorai.008G099100' => 'gra', 'Gorai.009G258900' => 'gra', 'Gorai.009G405100' => 'gra', 'Gorai.010G119900' => 'gra', 'Gorai.010G136000' => 'gra', 'Gorai.011G078900' => 'gra', 'Gorai.011G154800' => 'gra', 'Gorai.012G102000' => 'gra', 'Gorai.012G102100' => 'gra', 'Gorai.013G183200' => 'gra', 'GSVIVG01000801001' => 'vvi', 'GSVIVG01005309001' => 'vvi', 'GSVIVG01009552001' => 'vvi', 'GSVIVG01029582001' => 'vvi', 'GSVIVG01029921001' => 'vvi', 'HanXRQChr00c0328g0573581' => 'han', 'HanXRQChr00c0336g0573711' => 'han', 'HanXRQChr00c0336g0573721' => 'han', 'HanXRQChr00c0336g0573731' => 'han', 'HanXRQChr00c0379g0574331' => 'han', 'HanXRQChr00c0379g0574341' => 'han', 'HanXRQChr00c0561g0575891' => 'han', 'HanXRQChr00c0703g0576891' => 'han', 'HanXRQChr00c0703g0576901' => 'han', 'HanXRQChr00c0703g0576911' => 'han', 'HanXRQChr02g0059751' => 'han', 'HanXRQChr03g0087611' => 'han', 'HanXRQChr03g0087621' => 'han', 'HanXRQChr06g0182961' => 'han', 'HanXRQChr08g0222861' => 'han', 'HanXRQChr08g0222871' => 'han', 'HanXRQChr09g0258461' => 'han', 'HanXRQChr09g0258471' => 'han', 'HanXRQChr09g0258561' => 'han', 'HanXRQChr09g0275321' => 'han', 'HanXRQChr11g0321221' => 'han', 'HanXRQChr11g0333751' => 'han', 'HanXRQChr11g0336631' => 'han', 'HanXRQChr11g0347371' => 'han', 'HanXRQChr12g0376641' => 'han', 'HanXRQChr13g0413611' => 'han', 'HanXRQChr13g0416561' => 'han', 'HanXRQChr14g0428451' => 'han', 'HanXRQChr14g0428511' => 'han', 'HanXRQChr14g0430911' => 'han', 'HanXRQChr15g0465401' => 'han', 'HanXRQChr15g0465411' => 'han', 'HanXRQChr15g0465481' => 'han', 'HanXRQChr15g0465491' => 'han', 'HanXRQChr15g0465501' => 'han', 'HanXRQChr15g0465511' => 'han', 'HanXRQChr17g0557701' => 'han', 'HanXRQChr17g0557721' => 'han', 'HanXRQChr17g0557821' => 'han', 'HanXRQChr17g0569701' => 'han', 'HanXRQChr17g0569771' => 'han', 'HanXRQChr17g0569781' => 'han', 'HanXRQCPg0580321' => 'han', 'Hma1.2p1_0096F.1_g047620' => 'hma', 'HPP92_020413' => 'vpl', 'HPP92_028417' => 'vpl', 'HPP92_028431' => 'vpl', 'Hund01218' => 'sun', 'Hund01219' => 'sun', 'Hund01220' => 'sun', 'Hund03953' => 'sun', 'Hund03954' => 'sun', 'Hund08794' => 'sun', 'Hund08795' => 'sun', 'Hund11512' => 'sun', 'Hund12717' => 'sun', 'Hund12844' => 'sun', 'Hund17849' => 'sun', 'Hund18003' => 'sun', 'Hund18411' => 'sun', 'Hund20483' => 'sun', 'Hund22090' => 'sun', 'Hund22091' => 'sun', 'Hund23969' => 'sun', 'Hund27460' => 'sun', 'Hund27629' => 'sun', 'Hund27646' => 'sun', 'Hund27677' => 'sun', 'Hund27754' => 'sun', 'Hund27829' => 'sun', 'Hund27830' => 'sun', 'Hund27834' => 'sun', 'Hund27882' => 'sun', 'Hund28329' => 'sun', 'Hund28436' => 'sun', 'Hund28437' => 'sun', 'Hund28449' => 'sun', 'Hund28588' => 'sun', 'Hund28589' => 'sun', 'Hund28590' => 'sun', 'Hund28598' => 'sun', 'Hund28611' => 'sun', 'Hund28612' => 'sun', 'Hund28771' => 'sun', 'Hund28852' => 'sun', 'Hund28853' => 'sun', 'Hund28879' => 'sun', 'Hund28911' => 'sun', 'Hund28938' => 'sun', 'Hund28947' => 'sun', 'Hund28952' => 'sun', 'Hund28953' => 'sun', 'Hund28962' => 'sun', 'Hund28975' => 'sun', 'Hund28978' => 'sun', 'Hund29025' => 'sun', 'Hund29088' => 'sun', 'Hund29110' => 'sun', 'Hund29178' => 'sun', 'Hund29187' => 'sun', 'Hund29245' => 'sun', 'Hund29246' => 'sun', 'Hund29252' => 'sun', 'Hund29253' => 'sun', 'Hund29267' => 'sun', 'Hund29274' => 'sun', 'Hund29278' => 'sun', 'Hund29282' => 'sun', 'Hund29286' => 'sun', 'Hund29287' => 'sun', 'Hund29315' => 'sun', 'Hund29319' => 'sun', 'Hund29395' => 'sun', 'Hund29396' => 'sun', 'Hund29401' => 'sun', 'Hund29432' => 'sun', 'Hund29439' => 'sun', 'Hund29440' => 'sun', 'Hund29500' => 'sun', 'Hund29519' => 'sun', 'Hund29712' => 'sun', 'Hund29746' => 'sun', 'Hund29754' => 'sun', 'Hund29772' => 'sun', 'Hund29819' => 'sun', 'Hund30035' => 'sun', 'Hund30040' => 'sun', 'Hund30119' => 'sun', 'Hund30176' => 'sun', 'Hund30366' => 'sun', 'Hund31094' => 'sun', 'Lalb_Chr00c06g0404661' => 'lal', 'Lalb_Chr07g0191691' => 'lal', 'Lalb_Chr07g0191841' => 'lal', 'Lalb_Chr13g0293691' => 'lal', 'Lalb_Chr16g0388601' => 'lal', 'Lj2C1233T77' => 'lonja', 'Lj2P1238T100' => 'lonja', 'Lj9P89T23' => 'lonja', 'Lju5009P0T27' => 'lonja', 'Lju5009P0T28' => 'lonja', 'Lju5009P0T37' => 'lonja', 'Lju5009P0T46' => 'lonja', 'Lsat_1_v5_gn_0_20081' => 'lsa', 'Lsat_1_v5_gn_2_31300' => 'lsa', 'Lsat_1_v5_gn_6_14481' => 'lsa', 'Lsat_1_v5_gn_6_14501' => 'lsa', 'Manes.11G122808' => 'mes', 'Mapoly0048s0039' => 'mpo', 'MBI01_g06564_MAGBIO' => 'mbi', 'MBI08_g37092_MAGBIO' => 'mbi', 'MBI08_g37093_MAGBIO' => 'mbi', 'MBI08_g41351_MAGBIO' => 'mbi', 'MBI08_g41352_MAGBIO' => 'mbi', 'MBI09_g14156_MAGBIO' => 'mbi', 'MBI10_g47595_MAGBIO' => 'mbi', 'MD05G1133100' => 'mdo', 'MD10G1298900' => 'mdo', 'MD16G1210100' => 'mdo', 'Medtr1g011260' => 'mtr', 'Medtr1g037160' => 'mtr', 'Medtr1g041530' => 'mtr', 'Medtr1g045050' => 'mtr', 'Medtr1g110440' => 'mtr', 'Medtr2126s0020' => 'mtr', 'Medtr2g039370' => 'mtr', 'Medtr3g101440' => 'mtr', 'Medtr4g006080' => 'mtr', 'Medtr4g090535' => 'mtr', 'Medtr5g039110' => 'mtr', 'Medtr5g080950' => 'mtr', 'Medtr6g042180' => 'mtr', 'Medtr7g021690' => 'mtr', 'Medtr7g072180' => 'mtr', 'Medtr7g104140' => 'mtr', 'Medtr8g030390' => 'mtr', 'Medtr8g093760' => 'mtr', 'MELO3C008746.2' => 'cme', 'MELO3C027053.2' => 'cme', 'MELO3C027943.2' => 'cme', 'MELO3C030628.2' => 'cme', 'MELO3C030661.2' => 'cme', 'Migut.D01245' => 'egut', 'Migut.D01246' => 'egut', 'Migut.D01247' => 'egut', 'Migut.D01387' => 'egut', 'Migut.D01388' => 'egut', 'Migut.G00823' => 'egut', 'Migut.G01153' => 'egut', 'MSTRG.27595' => 'ama', 'Nitab4.5_0000172g2260' => 'nta', 'Nitab4.5_0000172g2280' => 'nta', 'Nitab4.5_0000472g0390' => 'nta', 'Nitab4.5_0000729g0030' => 'nta', 'Nitab4.5_0001574g0090' => 'nta', 'Nitab4.5_0002628g0020' => 'nta', 'Nitab4.5_0002691g0060' => 'nta', 'Nitab4.5_0004137g0040' => 'nta', 'Nitab4.5_0004137g0050' => 'nta', 'Nitab4.5_0004137g0090' => 'nta', 'Nitab4.5_0004697g0030' => 'nta', 'Nitab4.5_0004841g0060' => 'nta', 'Nitab4.5_0004841g0070' => 'nta', 'Nitab4.5_0006409g0070' => 'nta', 'Nitab4.5_0006502g0050' => 'nta', 'Nitab4.5_0006502g0060' => 'nta', 'Nitab4.5_0007104g0080' => 'nta', 'Nitab4.5_0007400g0070' => 'nta', 'Nitab4.5_0008665g0040' => 'nta', 'Nitab4.5_0010788g0060' => 'nta', 'Nitab4.5_0012234g0030' => 'nta', 'Nitab4.5_0012234g0050' => 'nta', 'Nitab4.5_0023521g0030' => 'nta', 'Nn029s41576' => 'nnu', 'Nn029s41577' => 'nnu', 'Nn029s41578' => 'nnu', 'Nn029s41579' => 'nnu', 'Nn029s41580' => 'nnu', 'Nn031s41609' => 'nnu', 'Nn064s42217' => 'nnu', 'Nn1g06176' => 'nnu', 'Nn1g08628' => 'nnu', 'Nn1g08629' => 'nnu', 'Nn212s45207' => 'nnu', 'Nn2g13236' => 'nnu', 'Nn304s46233' => 'nnu', 'Nn349s46479' => 'nnu', 'Nn4g25224' => 'nnu', 'Nn5g27511' => 'nnu', 'Nn6g34149' => 'nnu', 'Oeu010690.1' => 'oeu', 'Oeu011446.1' => 'oeu', 'Oeu011447.1' => 'oeu', 'Oeu012762.2' => 'oeu', 'Oeu012767.1' => 'oeu', 'Oeu015126.1' => 'oeu', 'Oeu022558.1' => 'oeu', 'Oeu023335.1' => 'oeu', 'Oeu038907.1' => 'oeu', 'Oeu046574.1' => 'oeu', 'Oeu054714.1' => 'oeu', 'Oeu054725.1' => 'oeu', 'Oeu058851.1' => 'oeu', 'Peaxi162Scf00030g02112' => 'pax', 'Peaxi162Scf00030g02113' => 'pax', 'Peaxi162Scf00080g00515' => 'pax', 'Peaxi162Scf00080g00516' => 'pax', 'Peaxi162Scf00080g00521' => 'pax', 'Peaxi162Scf00080g00522' => 'pax', 'Peaxi162Scf00080g00524' => 'pax', 'Peaxi162Scf00080g00527' => 'pax', 'Peaxi162Scf00080g00528' => 'pax', 'Peaxi162Scf00130g00416' => 'pax', 'Peaxi162Scf00139g00015' => 'pax', 'Peaxi162Scf00338g00618' => 'pax', 'Peaxi162Scf00536g00047' => 'pax', 'Peaxi162Scf01305g00038' => 'pax', 'Peaxi162Scf01305g00039' => 'pax', 'PGR081G0002' => 'pgr', 'PGR111G0057' => 'pgr', 'PGSC0003DMG400004187' => 'stu', 'PGSC0003DMG400010649' => 'stu', 'PGSC0003DMG400019919' => 'stu', 'Phvul.007G021600' => 'pvu', 'Phvul.009G122100' => 'pvu', 'Potri.002G008176' => 'ptr', 'Potri.005G150450' => 'ptr', 'Potri.005G150475' => 'ptr', 'Potri.010G052900' => 'ptr', 'Potri.011G073900' => 'ptr', 'Potri.013G075166' => 'ptr', 'Potri.013G075232' => 'ptr', 'Pp3c7_5000' => 'ppa', 'Psat0s1160g0280' => 'psa', 'Psat1g157760' => 'psa', 'Psat5g037720' => 'psa', 'PSO063G4510' => 'pso', 'PSO210G1984' => 'pso', 'PSO210G2726' => 'pso', 'PSO357G0427' => 'pso', 'PSO357G0618' => 'pso', 'PSO478G1394' => 'pso', 'PSO541G0682' => 'pso', 'PSO541G2875' => 'pso', 'PSO541G5077' => 'pso', 'PSO548G0067' => 'pso', 'QL93p0141_0004' => 'qlo', 'RcHm_v2.0_Chr2g0135101' => 'rch', 'RcHm_v2.0_Chr4g0392781' => 'rch', 'RcHm_v2.0_Chr4g0392791' => 'rch', 'RcHm_v2.0_Chr7g0212321' => 'rch', 'RcHm_v2.0_Chr7g0221181' => 'rch', 'SalBow1G2240' => 'sbo', 'SalBow1G3373' => 'sbo', 'SalBow1G6555' => 'sbo', 'Sc04g0003130' => 'sci', 'Sc10g0007490' => 'sci', 'Sc18g0005530' => 'sci', 'Sc25g0002030' => 'sci', 'ScUNg0000260' => 'sci', 'ScUNg0001540' => 'sci', 'Sed0000142' => 'sed', 'Sed0002593' => 'sed', 'Sed0006483' => 'sed', 'Sed0020782' => 'sed', 'Sed0021842' => 'sed', 'Sed0025207' => 'sed', 'Sed0025623' => 'sed', 'Sed0027483' => 'sed', 'SGA_v2.0_scaffold140G35506' => 'sas', 'SGA_v2.0_scaffold202G41455' => 'sas', 'SGA_v2.0_scaffold893G53699' => 'sas', 'Solyc00g500040.1' => 'sly', 'Solyc00g500042.1' => 'sly', 'Solyc00g500043.1' => 'sly', 'Solyc00g500084.1' => 'sly', 'Solyc00g500088.1' => 'sly', 'Solyc00g500125.1' => 'sly', 'Solyc00g500126.1' => 'sly', 'Solyc00g500190.1' => 'sly', 'Solyc00g500191.1' => 'sly', 'Solyc00g500196.1' => 'sly', 'Solyc00g500278.1' => 'sly', 'Solyc00g500279.1' => 'sly', 'Solyc00g500324.1' => 'sly', 'Solyc01g009550.1' => 'sly', 'Solyc01g017240.1' => 'sly', 'Solyc01g017250.1' => 'sly', 'Solyc01g017480.1' => 'sly', 'Solyc02g011820.3' => 'sly', 'Solyc02g011830.1' => 'sly', 'Solyc02g011840.1' => 'sly', 'Solyc02g011845.1' => 'sly', 'Solyc02g011850.3' => 'sly', 'Solyc02g011860.1' => 'sly', 'Solyc03g058230.1' => 'sly', 'Solyc04g045540.1' => 'sly', 'Solyc04g045550.1' => 'sly', 'Solyc05g016220.1' => 'sly', 'Solyc05g047440.1' => 'sly', 'Solyc07g041680.2' => 'sly', 'Solyc08g016000.2' => 'sly', 'Solyc08g043160.1' => 'sly', 'Solyc10g047390.1' => 'sly', 'Solyc10g049470.1' => 'sly', 'Solyc10g062235.1' => 'sly', 'Solyc11g021180.2' => 'sly', 'Solyc11g021240.3' => 'sly', 'Solyc11g021260.1' => 'sly', 'Solyc11g021270.1' => 'sly', 'Solyc11g021280.2' => 'sly', 'Solyc11g021300.2' => 'sly', 'Solyc11g021310.1' => 'sly', 'Solyc11g039900.3' => 'sly', 'Solyc11g044670.1' => 'sly', 'Solyc11g044680.3' => 'sly', 'Solyc11g044690.1' => 'sly', 'Solyc12g036550.3' => 'sly', 'Sopen02g002720' => 'spe', 'TAR365G0787' => 'tar', 'TAR624G0722' => 'tar', 'TAR626G0349' => 'tar', 'TAR633G1337' => 'tar', 'TPR.G19445' => 'tpr', 'TPR.G31143' => 'tpr', 'TPR.G34535' => 'tpr', 'TPR.G3560' => 'tpr', 'vmacro22418' => 'vma' ) $gf_id = 'HOM05D001070' $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' => 'HOM05D001070' ) $data_identifier = 'HOM05D001070' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 12, 'aly' => (int) 3, 'aox' => (int) 1, 'arhy' => (int) 11, 'ath' => (int) 3, 'acertr' => (int) 1, 'bca' => (int) 2, 'bol' => (int) 38, 'bra' => (int) 17, 'can' => (int) 7, 'cansat' => (int) 1, 'chi' => (int) 4, 'ccl' => (int) 13, 'cil' => (int) 2, 'cla' => (int) 6, 'cpa' => (int) 2, 'csa' => (int) 3, 'camsi' => (int) 2, 'dca' => (int) 3, 'dzi' => (int) 1, 'bvu' => (int) 8, 'egr' => (int) 2, 'fan' => (int) 2, 'gma' => (int) 6, 'ghi' => (int) 33, 'gra' => (int) 17, 'vvi' => (int) 5, 'han' => (int) 43, 'hma' => (int) 1, 'vpl' => (int) 3, 'sun' => (int) 84, 'lal' => (int) 5, 'lonja' => (int) 7, 'lsa' => (int) 4, 'mes' => (int) 1, 'mpo' => (int) 1, 'mbi' => (int) 7, 'mdo' => (int) 3, 'mtr' => (int) 18, 'cme' => (int) 5, 'egut' => (int) 7, 'ama' => (int) 1, 'nta' => (int) 23, 'nnu' => (int) 17, 'oeu' => (int) 13, 'pax' => (int) 15, 'pgr' => (int) 2, 'stu' => (int) 3, 'pvu' => (int) 2, 'ptr' => (int) 7, 'ppa' => (int) 1, 'psa' => (int) 3, 'pso' => (int) 10, 'qlo' => (int) 1, 'rch' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 6, 'sed' => (int) 8, 'sas' => (int) 3, 'sly' => (int) 46, 'spe' => (int) 1, 'tar' => (int) 4, 'tpr' => (int) 4, 'vma' => (int) 1 ) $gf_gene_species = 'vma' $gf_gene_id = 'vmacro22418' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 0